├── 01-intro.Rmd ├── 02-ngs.Rmd ├── 03-rnaseq.Rmd ├── 04-DE.Rmd ├── 05-cluster.Rmd ├── 06-DR.Rmd ├── 07-ML.Rmd ├── 08-M1Re.Rmd ├── 10-TFMF.Rmd ├── 11-ChIPseq.Rmd ├── 12-DNAmeth.Rmd ├── 13-HIST.Rmd ├── 14-HMM.Rmd ├── 15-HiC.Rmd ├── 16-M2Re.Rmd ├── 17-GWAS1.Rmd ├── 18-GWAS2.Rmd ├── 19-scRNAseq1.Rmd ├── 20-scRNAseq2.Rmd ├── 21-scATAC.Rmd ├── 22-M3Re.Rmd ├── 23-Cancerseq.Rmd ├── 24-Cancersub.Rmd ├── 25-PrecisionMedicine.Rmd ├── 26-Cancerimmuno1.Rmd ├── 27-Cancerimmuno2.Rmd ├── 28-CRISPR.Rmd ├── 29-M4Re.Rmd ├── Backup ├── 01-intro.Rmd ├── 02-NGS.Rmd ├── 03-RNA-seq.Rmd ├── 04-ML.Rmd ├── 05-motif.Rmd └── 06-summary.Rmd ├── Book.Rproj ├── LICENSE ├── README.md ├── _book ├── .DS_Store ├── Book.epub ├── Book.pdf ├── Book.tex ├── Book_files │ └── figure-html │ │ ├── .DS_Store │ │ └── nice-fig-1.png ├── index.html ├── intro.html ├── libs │ ├── 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 │ │ │ ├── lunr.js │ │ │ ├── plugin-bookdown.js │ │ │ ├── plugin-clipboard.js │ │ │ ├── plugin-fontsettings.js │ │ │ ├── plugin-search.js │ │ │ └── plugin-sharing.js │ ├── header-attrs-2.6 │ │ └── header-attrs.js │ └── jquery-2.2.3 │ │ └── jquery.min.js ├── reference-keys.txt ├── search_index.json └── style.css ├── _bookdown.yml ├── _bookdown_files └── Book_files │ └── figure-html │ └── .DS_Store ├── _output.yml ├── book.bib ├── docs ├── 404.html ├── Book.epub ├── Book.pdf ├── Book.tex ├── DNAMethyl.html ├── HiC.html ├── Motif.html ├── PrecisionMedicine.html ├── cancerimmuno1.html ├── cancerimmuno2.html ├── cancerseq.html ├── cancersub.html ├── chip.html ├── cluster.html ├── crispr.html ├── de.html ├── dr.html ├── epi.html ├── gsea.html ├── gwas1.html ├── gwas2.html ├── hist.html ├── hmm.html ├── index.html ├── intro.html ├── libs │ ├── accessible-code-block-0.0.1 │ │ └── empty-anchor.js │ ├── anchor-sections-1.0.1 │ │ ├── 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 │ │ │ ├── lunr.js │ │ │ ├── plugin-bookdown.js │ │ │ ├── plugin-clipboard.js │ │ │ ├── plugin-fontsettings.js │ │ │ ├── plugin-search.js │ │ │ └── plugin-sharing.js │ ├── header-attrs-2.13 │ │ └── header-attrs.js │ ├── header-attrs-2.6 │ │ └── header-attrs.js │ ├── jquery-2.2.3 │ │ └── jquery.min.js │ └── jquery-3.6.0 │ │ └── jquery-3.6.0.min.js ├── lrci.html ├── m1re.html ├── m2re.html ├── m3re.html ├── m4re.html ├── ml.html ├── ngs.html ├── reference-keys.txt ├── rnaseq.html ├── scatac.html ├── scrna1.html ├── scrna2.html ├── search_index.json ├── style.css ├── tfmf.html └── tt.html ├── index.Rmd ├── packages.bib ├── preamble.tex └── style.css /01-intro.Rmd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/liulab-dfci/bioinfo-combio/HEAD/01-intro.Rmd -------------------------------------------------------------------------------- /02-ngs.Rmd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/liulab-dfci/bioinfo-combio/HEAD/02-ngs.Rmd -------------------------------------------------------------------------------- /03-rnaseq.Rmd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/liulab-dfci/bioinfo-combio/HEAD/03-rnaseq.Rmd 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/27-Cancerimmuno2.Rmd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/liulab-dfci/bioinfo-combio/HEAD/27-Cancerimmuno2.Rmd -------------------------------------------------------------------------------- /28-CRISPR.Rmd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/liulab-dfci/bioinfo-combio/HEAD/28-CRISPR.Rmd -------------------------------------------------------------------------------- /29-M4Re.Rmd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/liulab-dfci/bioinfo-combio/HEAD/29-M4Re.Rmd -------------------------------------------------------------------------------- /Backup/01-intro.Rmd: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/liulab-dfci/bioinfo-combio/HEAD/Backup/01-intro.Rmd 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