├── .gitignore ├── 00-questions.Rmd ├── 01-Rbasic.Rmd ├── 02-Rplot.Rmd ├── 03-cytoscape.Rmd ├── 04-AI.Rmd ├── 05-STAR.DESeq2.simpler.Rmd ├── 06-1-Tips.Rmd ├── 06-2-dplyr.Rmd ├── 06-Visualization.Rmd ├── 07-Online.Rmd ├── 08-refereneces.Rmd ├── Count_matrix.xls ├── README.md ├── R_course.Rproj ├── R_course ├── 404.html ├── AI.html ├── R_course_files │ └── figure-html │ │ ├── comparepcascalelogplot-1.png │ │ ├── comparescale-1.png │ │ ├── comparevargenepcascalelogplot-1.png │ │ ├── data3oldplot-1.png │ │ ├── fig-1.png │ │ ├── jitter2Ddata-1.png │ │ ├── jitter3Ddata1-1.png │ │ ├── jitter3Ddata2-1.png │ │ ├── jitter3Ddata3-1.png │ │ ├── jitteroneDdata-1.png │ │ ├── p3dvar1-1.png │ │ ├── pcaclusterplot-1.png │ │ ├── pcaclusterplot3d-1.png │ │ ├── pcacompare-1.png │ │ ├── quasimPLot-1.png │ │ ├── unnamed-chunk-101-1.png │ │ ├── unnamed-chunk-102-1.png │ │ ├── unnamed-chunk-104-1.png │ │ ├── unnamed-chunk-107-1.png │ │ ├── unnamed-chunk-108-1.png │ │ ├── unnamed-chunk-109-1.png │ │ ├── unnamed-chunk-112-1.png │ │ ├── unnamed-chunk-113-1.png │ │ ├── unnamed-chunk-114-1.png │ │ ├── unnamed-chunk-116-1.png │ │ ├── unnamed-chunk-117-1.png │ │ ├── unnamed-chunk-118-1.png │ │ ├── unnamed-chunk-119-1.png │ │ ├── unnamed-chunk-120-1.png │ │ ├── unnamed-chunk-121-1.png │ │ ├── unnamed-chunk-124-1.png │ │ ├── unnamed-chunk-125-1.png │ │ ├── unnamed-chunk-126-1.png │ │ ├── unnamed-chunk-127-1.png │ │ ├── unnamed-chunk-128-1.png │ │ ├── unnamed-chunk-139-1.png │ │ ├── unnamed-chunk-140-1.png │ │ ├── unnamed-chunk-141-1.png │ │ ├── unnamed-chunk-142-1.png │ │ ├── unnamed-chunk-143-1.png │ │ ├── unnamed-chunk-144-1.png │ │ ├── unnamed-chunk-145-1.png │ │ ├── unnamed-chunk-146-1.png │ │ ├── unnamed-chunk-147-1.png │ │ ├── unnamed-chunk-152-1.png │ │ ├── unnamed-chunk-155-1.png │ │ ├── unnamed-chunk-158-1.png │ │ ├── unnamed-chunk-160-1.png │ │ ├── unnamed-chunk-169-1.png │ │ ├── unnamed-chunk-170-1.png │ │ ├── unnamed-chunk-172-1.png │ │ ├── unnamed-chunk-173-1.png │ │ ├── unnamed-chunk-174-1.png │ │ ├── unnamed-chunk-177-1.png │ │ ├── unnamed-chunk-178-1.png │ │ ├── unnamed-chunk-180-1.png │ │ ├── unnamed-chunk-181-1.png │ │ ├── unnamed-chunk-182-1.png │ │ ├── unnamed-chunk-183-1.png │ │ ├── unnamed-chunk-184-1.png │ │ ├── unnamed-chunk-185-1.png │ │ ├── unnamed-chunk-186-1.png │ │ ├── unnamed-chunk-187-1.png │ │ ├── unnamed-chunk-188-1.png │ │ ├── unnamed-chunk-190-1.png │ │ ├── unnamed-chunk-191-1.png │ │ ├── unnamed-chunk-192-1.png │ │ ├── unnamed-chunk-193-1.png │ │ ├── unnamed-chunk-198-1.png │ │ ├── unnamed-chunk-199-1.png │ │ ├── unnamed-chunk-200-1.png │ │ ├── unnamed-chunk-201-1.png │ │ ├── unnamed-chunk-202-1.png │ │ ├── unnamed-chunk-207-1.png │ │ ├── unnamed-chunk-209-1.png │ │ ├── unnamed-chunk-220-1.png │ │ ├── unnamed-chunk-76-1.png │ │ ├── unnamed-chunk-77-1.png │ │ ├── unnamed-chunk-78-1.png │ │ ├── unnamed-chunk-79-1.png │ │ ├── unnamed-chunk-80-1.png │ │ ├── unnamed-chunk-81-1.png │ │ ├── unnamed-chunk-82-1.png │ │ ├── unnamed-chunk-83-1.png │ │ ├── unnamed-chunk-84-1.png │ │ ├── unnamed-chunk-85-1.png │ │ ├── unnamed-chunk-86-1.png │ │ ├── unnamed-chunk-87-1.png │ │ ├── unnamed-chunk-88-1.png │ │ ├── unnamed-chunk-89-1.png │ │ └── unnamed-chunk-98-1.png ├── Rbasic.html ├── Rplots.html ├── batch.html ├── cytoscape.html ├── heatmap.pdf ├── imagegp.html ├── images │ ├── R_basic.jpg │ ├── Rstudio.gif │ ├── Rstudio_IDE.png │ ├── Rstudio_version.png │ ├── articlePic2nd_1.png │ ├── articlePic2nd_2.png │ ├── articlePic2nd_3_line.png │ ├── articlePic2nd_4_bar.png │ ├── articlePic2nd_5_ucsc.png │ ├── articlePic2nd_6_model.png │ ├── attribute_circle_layout.png │ ├── batch15.jpg │ ├── batch16.jpg │ ├── batch17.jpg │ ├── batch18.jpg │ ├── batch20.jpg │ ├── batch3_untrt_higher_venn.png │ ├── batch3_untrt_lower_venn.png │ ├── boxplot_10.png │ ├── boxplot_4.png │ ├── boxplot_6.png │ ├── boxplot_7.png │ ├── boxplot_8.png │ ├── boxplot_9.png │ ├── boxplot_nm.png │ ├── cose_layout.png │ ├── force_layout.png │ ├── group_by_attributes_layout.png │ ├── line_10.png │ ├── line_11.png │ ├── line_12.png │ ├── line_13.png │ ├── line_9.png │ ├── metaphlan2.png │ ├── pheatmap_6.png │ ├── pheatmap_7.png │ ├── scatterplot6.png │ ├── scatterplot7.png │ ├── spring.png │ ├── surv_input_data.png │ ├── surv_life_table.png │ ├── sxbd_font.png │ ├── venn.gif │ └── yOrganic.png ├── index.html ├── libs │ ├── anchor-sections-1.1.0 │ │ ├── anchor-sections-hash.css │ │ ├── anchor-sections.css │ │ └── anchor-sections.js │ ├── gitbook-2.6.7 │ │ ├── css │ │ │ ├── fontawesome │ │ │ │ └── fontawesome-webfont.ttf │ │ │ ├── plugin-bookdown.css │ │ │ ├── plugin-clipboard.css │ │ │ ├── plugin-fontsettings.css │ │ │ ├── plugin-highlight.css │ │ │ ├── plugin-search.css │ │ │ ├── plugin-table.css │ │ │ └── style.css │ │ └── js │ │ │ ├── app.min.js │ │ │ ├── clipboard.min.js │ │ │ ├── jquery.highlight.js │ │ │ ├── plugin-bookdown.js │ │ │ ├── plugin-clipboard.js │ │ │ ├── plugin-fontsettings.js │ │ │ ├── plugin-search.js │ │ │ └── plugin-sharing.js │ └── jquery-3.6.0 │ │ └── jquery-3.6.0.min.js ├── questions.html ├── questions06.html ├── ref.html ├── reference-keys.txt ├── search_index.json ├── style.css ├── visual1.html └── 推荐一个-r-中很好用的条件判断语句.html ├── _bookdown.yml ├── _output.yml ├── analysis.DESeq2.all.DE.symbol ├── analysis.simpler.DESeq2.normalized.rlog.xls ├── analysis.simplier.DESeq2.log2fc_ranked.symbol ├── analysis.simplier.DESeq2.normalized.symbol.txt ├── data.zip ├── data ├── BRCA.tsv ├── GOenrichement.xls ├── HiSeq301-RSEM-linear_values.txt ├── README.txt ├── boxplot.melt.data ├── boxplot.normal.data ├── boxplot_singleGene.data ├── boxplot_singleGene.data.txt ├── sampleGroup ├── upsetview.txt ├── venn.txt └── volcano.txt ├── exprTable.txt ├── h.all.v6.2.symbols.gmt.forGO ├── heatmap_col_anno.xls ├── heatmap_data.xls ├── heatmap_row_anno.xls ├── images ├── R_basic.jpg ├── Rstudio.gif ├── Rstudio_IDE.png ├── Rstudio_version.png ├── articlePic2nd_1.png ├── articlePic2nd_2.png ├── articlePic2nd_3_line.png ├── articlePic2nd_4_bar.png ├── articlePic2nd_5_ucsc.png ├── articlePic2nd_6_model.png ├── attribute_circle_layout.png ├── batch15.jpg ├── batch16.jpg ├── batch17.jpg ├── batch18.jpg ├── batch19.jpg ├── batch20.jpg ├── batch3_untrt_higher_venn.png ├── batch3_untrt_lower_venn.png ├── boxplot_10.png ├── boxplot_4.png ├── boxplot_6.png ├── boxplot_7.png ├── boxplot_8.png ├── boxplot_9.png ├── boxplot_before_batch.png ├── boxplot_nm.png ├── cluster1_before_batch.png ├── cluster2_before_batch.png ├── cose_layout.png ├── force_layout.png ├── group_by_attributes_layout.png ├── hjust_vjust.png ├── line_10.png ├── line_11.png ├── line_12.png ├── line_13.png ├── line_9.png ├── metaphlan2.png ├── pair_boxplot_for_gene_de_afterbatch.png ├── pair_boxplot_for_gene_de_beforebatch.png ├── pca_after_batch.png ├── pca_before_batch.png ├── pheatmap_6.png ├── pheatmap_7.png ├── scatterplot6.png ├── scatterplot7.png ├── spring.png ├── surv_input_data.png ├── surv_life_table.png ├── sva_batch1.png ├── sxbd_font.png ├── untrt_higher_representative_gene.png ├── untrt_lower_representative_gene.png ├── venn.gif └── yOrganic.png ├── index.Rmd ├── line_data.xls ├── line_data_melt.xls ├── metadata.txt ├── sampleFile ├── sampleFile2.txt ├── style.css └── template.latex /.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/.gitignore -------------------------------------------------------------------------------- /00-questions.Rmd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/00-questions.Rmd -------------------------------------------------------------------------------- /01-Rbasic.Rmd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/01-Rbasic.Rmd -------------------------------------------------------------------------------- /02-Rplot.Rmd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/02-Rplot.Rmd -------------------------------------------------------------------------------- /03-cytoscape.Rmd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/03-cytoscape.Rmd -------------------------------------------------------------------------------- /04-AI.Rmd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/04-AI.Rmd -------------------------------------------------------------------------------- /05-STAR.DESeq2.simpler.Rmd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/05-STAR.DESeq2.simpler.Rmd -------------------------------------------------------------------------------- /06-1-Tips.Rmd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/06-1-Tips.Rmd -------------------------------------------------------------------------------- /06-2-dplyr.Rmd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/06-2-dplyr.Rmd -------------------------------------------------------------------------------- /06-Visualization.Rmd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/06-Visualization.Rmd -------------------------------------------------------------------------------- /07-Online.Rmd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/07-Online.Rmd -------------------------------------------------------------------------------- /08-refereneces.Rmd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/08-refereneces.Rmd -------------------------------------------------------------------------------- /Count_matrix.xls: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/Count_matrix.xls -------------------------------------------------------------------------------- /README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/README.md -------------------------------------------------------------------------------- /R_course.Rproj: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course.Rproj -------------------------------------------------------------------------------- /R_course/404.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/404.html -------------------------------------------------------------------------------- /R_course/AI.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/AI.html -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/comparepcascalelogplot-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/comparepcascalelogplot-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/comparescale-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/comparescale-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/comparevargenepcascalelogplot-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/comparevargenepcascalelogplot-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/data3oldplot-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/data3oldplot-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/fig-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/fig-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/jitter2Ddata-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/jitter2Ddata-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/jitter3Ddata1-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/jitter3Ddata1-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/jitter3Ddata2-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/jitter3Ddata2-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/jitter3Ddata3-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/jitter3Ddata3-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/jitteroneDdata-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/jitteroneDdata-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/p3dvar1-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/p3dvar1-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/pcaclusterplot-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/pcaclusterplot-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/pcaclusterplot3d-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/pcaclusterplot3d-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/pcacompare-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/pcacompare-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/quasimPLot-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/quasimPLot-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-101-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-101-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-102-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-102-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-104-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-104-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-107-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-107-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-108-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-108-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-109-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-109-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-112-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-112-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-113-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-113-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-114-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-114-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-116-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-116-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-117-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-117-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-118-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-118-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-119-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-119-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-120-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-120-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-121-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-121-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-124-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-124-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-125-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-125-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-126-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-126-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-127-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-127-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-128-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-128-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-139-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-139-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-140-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-140-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-141-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-141-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-142-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-142-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-143-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-143-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-144-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-144-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-145-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-145-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-146-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-146-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-147-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-147-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-152-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-152-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-155-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-155-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-158-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-158-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-160-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-160-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-169-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-169-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-170-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-170-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-172-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-172-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-173-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-173-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-174-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-174-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-177-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-177-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-178-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-178-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-180-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-180-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-181-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-181-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-182-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-182-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-183-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-183-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-184-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-184-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-185-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-185-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-186-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-186-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-187-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-187-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-188-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-188-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-190-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-190-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-191-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-191-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-192-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-192-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-193-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-193-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-198-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-198-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-199-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-199-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-200-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-200-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-201-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-201-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-202-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-202-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-207-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-207-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-209-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-209-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-220-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-220-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-76-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-76-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-77-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-77-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-78-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-78-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-79-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-79-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-80-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-80-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-81-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-81-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-82-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-82-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-83-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-83-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-84-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-84-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-85-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-85-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-86-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-86-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-87-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-87-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-88-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-88-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-89-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-89-1.png -------------------------------------------------------------------------------- /R_course/R_course_files/figure-html/unnamed-chunk-98-1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/R_course_files/figure-html/unnamed-chunk-98-1.png -------------------------------------------------------------------------------- /R_course/Rbasic.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/Rbasic.html -------------------------------------------------------------------------------- /R_course/Rplots.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/Rplots.html -------------------------------------------------------------------------------- /R_course/batch.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/batch.html -------------------------------------------------------------------------------- /R_course/cytoscape.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/cytoscape.html -------------------------------------------------------------------------------- /R_course/heatmap.pdf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/heatmap.pdf -------------------------------------------------------------------------------- /R_course/imagegp.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/imagegp.html -------------------------------------------------------------------------------- /R_course/images/R_basic.jpg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/R_basic.jpg -------------------------------------------------------------------------------- /R_course/images/Rstudio.gif: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/Rstudio.gif -------------------------------------------------------------------------------- /R_course/images/Rstudio_IDE.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/Rstudio_IDE.png -------------------------------------------------------------------------------- /R_course/images/Rstudio_version.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/Rstudio_version.png -------------------------------------------------------------------------------- /R_course/images/articlePic2nd_1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/articlePic2nd_1.png -------------------------------------------------------------------------------- /R_course/images/articlePic2nd_2.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/articlePic2nd_2.png -------------------------------------------------------------------------------- /R_course/images/articlePic2nd_3_line.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/articlePic2nd_3_line.png -------------------------------------------------------------------------------- /R_course/images/articlePic2nd_4_bar.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/articlePic2nd_4_bar.png -------------------------------------------------------------------------------- /R_course/images/articlePic2nd_5_ucsc.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/articlePic2nd_5_ucsc.png -------------------------------------------------------------------------------- /R_course/images/articlePic2nd_6_model.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/articlePic2nd_6_model.png -------------------------------------------------------------------------------- /R_course/images/attribute_circle_layout.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/attribute_circle_layout.png -------------------------------------------------------------------------------- /R_course/images/batch15.jpg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/batch15.jpg -------------------------------------------------------------------------------- /R_course/images/batch16.jpg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/batch16.jpg -------------------------------------------------------------------------------- /R_course/images/batch17.jpg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/batch17.jpg -------------------------------------------------------------------------------- /R_course/images/batch18.jpg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/batch18.jpg -------------------------------------------------------------------------------- /R_course/images/batch20.jpg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/batch20.jpg -------------------------------------------------------------------------------- /R_course/images/batch3_untrt_higher_venn.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/batch3_untrt_higher_venn.png -------------------------------------------------------------------------------- /R_course/images/batch3_untrt_lower_venn.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/batch3_untrt_lower_venn.png -------------------------------------------------------------------------------- /R_course/images/boxplot_10.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/boxplot_10.png -------------------------------------------------------------------------------- /R_course/images/boxplot_4.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/boxplot_4.png -------------------------------------------------------------------------------- /R_course/images/boxplot_6.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/boxplot_6.png -------------------------------------------------------------------------------- /R_course/images/boxplot_7.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/boxplot_7.png -------------------------------------------------------------------------------- /R_course/images/boxplot_8.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/boxplot_8.png -------------------------------------------------------------------------------- /R_course/images/boxplot_9.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/boxplot_9.png -------------------------------------------------------------------------------- /R_course/images/boxplot_nm.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/boxplot_nm.png -------------------------------------------------------------------------------- /R_course/images/cose_layout.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/cose_layout.png -------------------------------------------------------------------------------- /R_course/images/force_layout.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/force_layout.png -------------------------------------------------------------------------------- /R_course/images/group_by_attributes_layout.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/group_by_attributes_layout.png -------------------------------------------------------------------------------- /R_course/images/line_10.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/line_10.png -------------------------------------------------------------------------------- /R_course/images/line_11.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/line_11.png -------------------------------------------------------------------------------- /R_course/images/line_12.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/line_12.png -------------------------------------------------------------------------------- /R_course/images/line_13.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/line_13.png -------------------------------------------------------------------------------- /R_course/images/line_9.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/line_9.png -------------------------------------------------------------------------------- /R_course/images/metaphlan2.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/metaphlan2.png -------------------------------------------------------------------------------- /R_course/images/pheatmap_6.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/pheatmap_6.png -------------------------------------------------------------------------------- /R_course/images/pheatmap_7.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/pheatmap_7.png -------------------------------------------------------------------------------- /R_course/images/scatterplot6.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/scatterplot6.png -------------------------------------------------------------------------------- /R_course/images/scatterplot7.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/scatterplot7.png -------------------------------------------------------------------------------- /R_course/images/spring.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/spring.png -------------------------------------------------------------------------------- /R_course/images/surv_input_data.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/surv_input_data.png -------------------------------------------------------------------------------- /R_course/images/surv_life_table.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/surv_life_table.png -------------------------------------------------------------------------------- /R_course/images/sxbd_font.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/sxbd_font.png -------------------------------------------------------------------------------- /R_course/images/venn.gif: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/venn.gif -------------------------------------------------------------------------------- /R_course/images/yOrganic.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/images/yOrganic.png -------------------------------------------------------------------------------- /R_course/index.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/index.html -------------------------------------------------------------------------------- /R_course/libs/anchor-sections-1.1.0/anchor-sections-hash.css: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/libs/anchor-sections-1.1.0/anchor-sections-hash.css -------------------------------------------------------------------------------- /R_course/libs/anchor-sections-1.1.0/anchor-sections.css: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/libs/anchor-sections-1.1.0/anchor-sections.css -------------------------------------------------------------------------------- /R_course/libs/anchor-sections-1.1.0/anchor-sections.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/libs/anchor-sections-1.1.0/anchor-sections.js -------------------------------------------------------------------------------- /R_course/libs/gitbook-2.6.7/css/fontawesome/fontawesome-webfont.ttf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/libs/gitbook-2.6.7/css/fontawesome/fontawesome-webfont.ttf -------------------------------------------------------------------------------- /R_course/libs/gitbook-2.6.7/css/plugin-bookdown.css: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/libs/gitbook-2.6.7/css/plugin-bookdown.css -------------------------------------------------------------------------------- /R_course/libs/gitbook-2.6.7/css/plugin-clipboard.css: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/libs/gitbook-2.6.7/css/plugin-clipboard.css -------------------------------------------------------------------------------- /R_course/libs/gitbook-2.6.7/css/plugin-fontsettings.css: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/libs/gitbook-2.6.7/css/plugin-fontsettings.css -------------------------------------------------------------------------------- /R_course/libs/gitbook-2.6.7/css/plugin-highlight.css: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/libs/gitbook-2.6.7/css/plugin-highlight.css -------------------------------------------------------------------------------- /R_course/libs/gitbook-2.6.7/css/plugin-search.css: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/libs/gitbook-2.6.7/css/plugin-search.css -------------------------------------------------------------------------------- /R_course/libs/gitbook-2.6.7/css/plugin-table.css: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/libs/gitbook-2.6.7/css/plugin-table.css -------------------------------------------------------------------------------- /R_course/libs/gitbook-2.6.7/css/style.css: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/libs/gitbook-2.6.7/css/style.css -------------------------------------------------------------------------------- /R_course/libs/gitbook-2.6.7/js/app.min.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/libs/gitbook-2.6.7/js/app.min.js -------------------------------------------------------------------------------- /R_course/libs/gitbook-2.6.7/js/clipboard.min.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/libs/gitbook-2.6.7/js/clipboard.min.js -------------------------------------------------------------------------------- /R_course/libs/gitbook-2.6.7/js/jquery.highlight.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/libs/gitbook-2.6.7/js/jquery.highlight.js -------------------------------------------------------------------------------- /R_course/libs/gitbook-2.6.7/js/plugin-bookdown.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/libs/gitbook-2.6.7/js/plugin-bookdown.js -------------------------------------------------------------------------------- /R_course/libs/gitbook-2.6.7/js/plugin-clipboard.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/libs/gitbook-2.6.7/js/plugin-clipboard.js -------------------------------------------------------------------------------- /R_course/libs/gitbook-2.6.7/js/plugin-fontsettings.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/libs/gitbook-2.6.7/js/plugin-fontsettings.js -------------------------------------------------------------------------------- /R_course/libs/gitbook-2.6.7/js/plugin-search.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/libs/gitbook-2.6.7/js/plugin-search.js -------------------------------------------------------------------------------- /R_course/libs/gitbook-2.6.7/js/plugin-sharing.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/libs/gitbook-2.6.7/js/plugin-sharing.js -------------------------------------------------------------------------------- /R_course/libs/jquery-3.6.0/jquery-3.6.0.min.js: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/libs/jquery-3.6.0/jquery-3.6.0.min.js -------------------------------------------------------------------------------- /R_course/questions.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/questions.html -------------------------------------------------------------------------------- /R_course/questions06.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/questions06.html -------------------------------------------------------------------------------- /R_course/ref.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/ref.html -------------------------------------------------------------------------------- /R_course/reference-keys.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/reference-keys.txt -------------------------------------------------------------------------------- /R_course/search_index.json: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/search_index.json -------------------------------------------------------------------------------- /R_course/style.css: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/style.css -------------------------------------------------------------------------------- /R_course/visual1.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/visual1.html -------------------------------------------------------------------------------- /R_course/推荐一个-r-中很好用的条件判断语句.html: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/R_course/推荐一个-r-中很好用的条件判断语句.html -------------------------------------------------------------------------------- /_bookdown.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/_bookdown.yml -------------------------------------------------------------------------------- /_output.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/_output.yml -------------------------------------------------------------------------------- /analysis.DESeq2.all.DE.symbol: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/analysis.DESeq2.all.DE.symbol -------------------------------------------------------------------------------- /analysis.simpler.DESeq2.normalized.rlog.xls: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/analysis.simpler.DESeq2.normalized.rlog.xls -------------------------------------------------------------------------------- /analysis.simplier.DESeq2.log2fc_ranked.symbol: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/analysis.simplier.DESeq2.log2fc_ranked.symbol -------------------------------------------------------------------------------- /analysis.simplier.DESeq2.normalized.symbol.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/analysis.simplier.DESeq2.normalized.symbol.txt -------------------------------------------------------------------------------- /data.zip: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/data.zip -------------------------------------------------------------------------------- /data/BRCA.tsv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/data/BRCA.tsv -------------------------------------------------------------------------------- /data/GOenrichement.xls: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/data/GOenrichement.xls -------------------------------------------------------------------------------- /data/HiSeq301-RSEM-linear_values.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/data/HiSeq301-RSEM-linear_values.txt -------------------------------------------------------------------------------- /data/README.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/data/README.txt -------------------------------------------------------------------------------- /data/boxplot.melt.data: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/data/boxplot.melt.data -------------------------------------------------------------------------------- /data/boxplot.normal.data: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/data/boxplot.normal.data -------------------------------------------------------------------------------- /data/boxplot_singleGene.data: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/data/boxplot_singleGene.data -------------------------------------------------------------------------------- /data/boxplot_singleGene.data.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/data/boxplot_singleGene.data.txt -------------------------------------------------------------------------------- /data/sampleGroup: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/data/sampleGroup -------------------------------------------------------------------------------- /data/upsetview.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/data/upsetview.txt -------------------------------------------------------------------------------- /data/venn.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/data/venn.txt -------------------------------------------------------------------------------- /data/volcano.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/data/volcano.txt -------------------------------------------------------------------------------- /exprTable.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/exprTable.txt -------------------------------------------------------------------------------- /h.all.v6.2.symbols.gmt.forGO: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/h.all.v6.2.symbols.gmt.forGO -------------------------------------------------------------------------------- /heatmap_col_anno.xls: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/heatmap_col_anno.xls -------------------------------------------------------------------------------- /heatmap_data.xls: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/heatmap_data.xls -------------------------------------------------------------------------------- /heatmap_row_anno.xls: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/heatmap_row_anno.xls -------------------------------------------------------------------------------- /images/R_basic.jpg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/R_basic.jpg -------------------------------------------------------------------------------- /images/Rstudio.gif: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/Rstudio.gif -------------------------------------------------------------------------------- /images/Rstudio_IDE.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/Rstudio_IDE.png -------------------------------------------------------------------------------- /images/Rstudio_version.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/Rstudio_version.png -------------------------------------------------------------------------------- /images/articlePic2nd_1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/articlePic2nd_1.png -------------------------------------------------------------------------------- /images/articlePic2nd_2.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/articlePic2nd_2.png -------------------------------------------------------------------------------- /images/articlePic2nd_3_line.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/articlePic2nd_3_line.png -------------------------------------------------------------------------------- /images/articlePic2nd_4_bar.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/articlePic2nd_4_bar.png -------------------------------------------------------------------------------- /images/articlePic2nd_5_ucsc.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/articlePic2nd_5_ucsc.png -------------------------------------------------------------------------------- /images/articlePic2nd_6_model.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/articlePic2nd_6_model.png -------------------------------------------------------------------------------- /images/attribute_circle_layout.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/attribute_circle_layout.png -------------------------------------------------------------------------------- /images/batch15.jpg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/batch15.jpg -------------------------------------------------------------------------------- /images/batch16.jpg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/batch16.jpg -------------------------------------------------------------------------------- /images/batch17.jpg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/batch17.jpg -------------------------------------------------------------------------------- /images/batch18.jpg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/batch18.jpg -------------------------------------------------------------------------------- /images/batch19.jpg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/batch19.jpg -------------------------------------------------------------------------------- /images/batch20.jpg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/batch20.jpg -------------------------------------------------------------------------------- /images/batch3_untrt_higher_venn.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/batch3_untrt_higher_venn.png -------------------------------------------------------------------------------- /images/batch3_untrt_lower_venn.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/batch3_untrt_lower_venn.png -------------------------------------------------------------------------------- /images/boxplot_10.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/boxplot_10.png -------------------------------------------------------------------------------- /images/boxplot_4.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/boxplot_4.png -------------------------------------------------------------------------------- /images/boxplot_6.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/boxplot_6.png -------------------------------------------------------------------------------- /images/boxplot_7.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/boxplot_7.png -------------------------------------------------------------------------------- /images/boxplot_8.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/boxplot_8.png -------------------------------------------------------------------------------- /images/boxplot_9.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/boxplot_9.png -------------------------------------------------------------------------------- /images/boxplot_before_batch.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/boxplot_before_batch.png -------------------------------------------------------------------------------- /images/boxplot_nm.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/boxplot_nm.png -------------------------------------------------------------------------------- /images/cluster1_before_batch.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/cluster1_before_batch.png -------------------------------------------------------------------------------- /images/cluster2_before_batch.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/cluster2_before_batch.png -------------------------------------------------------------------------------- /images/cose_layout.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/cose_layout.png -------------------------------------------------------------------------------- /images/force_layout.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/force_layout.png -------------------------------------------------------------------------------- /images/group_by_attributes_layout.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/group_by_attributes_layout.png -------------------------------------------------------------------------------- /images/hjust_vjust.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/hjust_vjust.png -------------------------------------------------------------------------------- /images/line_10.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/line_10.png -------------------------------------------------------------------------------- /images/line_11.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/line_11.png -------------------------------------------------------------------------------- /images/line_12.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/line_12.png -------------------------------------------------------------------------------- /images/line_13.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/line_13.png -------------------------------------------------------------------------------- /images/line_9.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/line_9.png -------------------------------------------------------------------------------- /images/metaphlan2.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/metaphlan2.png -------------------------------------------------------------------------------- /images/pair_boxplot_for_gene_de_afterbatch.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/pair_boxplot_for_gene_de_afterbatch.png -------------------------------------------------------------------------------- /images/pair_boxplot_for_gene_de_beforebatch.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/pair_boxplot_for_gene_de_beforebatch.png -------------------------------------------------------------------------------- /images/pca_after_batch.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/pca_after_batch.png -------------------------------------------------------------------------------- /images/pca_before_batch.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/pca_before_batch.png -------------------------------------------------------------------------------- /images/pheatmap_6.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/pheatmap_6.png -------------------------------------------------------------------------------- /images/pheatmap_7.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/pheatmap_7.png -------------------------------------------------------------------------------- /images/scatterplot6.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/scatterplot6.png -------------------------------------------------------------------------------- /images/scatterplot7.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/scatterplot7.png -------------------------------------------------------------------------------- /images/spring.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/spring.png -------------------------------------------------------------------------------- /images/surv_input_data.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/surv_input_data.png -------------------------------------------------------------------------------- /images/surv_life_table.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/surv_life_table.png -------------------------------------------------------------------------------- /images/sva_batch1.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/sva_batch1.png -------------------------------------------------------------------------------- /images/sxbd_font.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/sxbd_font.png -------------------------------------------------------------------------------- /images/untrt_higher_representative_gene.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/untrt_higher_representative_gene.png -------------------------------------------------------------------------------- /images/untrt_lower_representative_gene.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/untrt_lower_representative_gene.png -------------------------------------------------------------------------------- /images/venn.gif: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/venn.gif -------------------------------------------------------------------------------- /images/yOrganic.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/images/yOrganic.png -------------------------------------------------------------------------------- /index.Rmd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/index.Rmd -------------------------------------------------------------------------------- /line_data.xls: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/line_data.xls -------------------------------------------------------------------------------- /line_data_melt.xls: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/line_data_melt.xls -------------------------------------------------------------------------------- /metadata.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/metadata.txt -------------------------------------------------------------------------------- /sampleFile: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/sampleFile -------------------------------------------------------------------------------- /sampleFile2.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/sampleFile2.txt -------------------------------------------------------------------------------- /style.css: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/style.css -------------------------------------------------------------------------------- /template.latex: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Tong-Chen/Bioinfo_course_R/HEAD/template.latex --------------------------------------------------------------------------------