├── README.md ├── RNA-seq-downstream-analysis.Rproj ├── app.R ├── data └── ath_gene_alias.txt └── scripts ├── BuildDdsFromMatrix.R ├── DE_results_filter.R ├── DGE_analysis.R ├── Enrichment_analysis.R ├── PCA_plot.R ├── gene_dot_plot.R └── volcano_plot.R /README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/xuzhougeng/RNA-seq-downstream-analysis/HEAD/README.md -------------------------------------------------------------------------------- /RNA-seq-downstream-analysis.Rproj: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/xuzhougeng/RNA-seq-downstream-analysis/HEAD/RNA-seq-downstream-analysis.Rproj -------------------------------------------------------------------------------- /app.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/xuzhougeng/RNA-seq-downstream-analysis/HEAD/app.R -------------------------------------------------------------------------------- /data/ath_gene_alias.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/xuzhougeng/RNA-seq-downstream-analysis/HEAD/data/ath_gene_alias.txt -------------------------------------------------------------------------------- /scripts/BuildDdsFromMatrix.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/xuzhougeng/RNA-seq-downstream-analysis/HEAD/scripts/BuildDdsFromMatrix.R -------------------------------------------------------------------------------- /scripts/DE_results_filter.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/xuzhougeng/RNA-seq-downstream-analysis/HEAD/scripts/DE_results_filter.R -------------------------------------------------------------------------------- /scripts/DGE_analysis.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/xuzhougeng/RNA-seq-downstream-analysis/HEAD/scripts/DGE_analysis.R -------------------------------------------------------------------------------- /scripts/Enrichment_analysis.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/xuzhougeng/RNA-seq-downstream-analysis/HEAD/scripts/Enrichment_analysis.R -------------------------------------------------------------------------------- /scripts/PCA_plot.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/xuzhougeng/RNA-seq-downstream-analysis/HEAD/scripts/PCA_plot.R -------------------------------------------------------------------------------- /scripts/gene_dot_plot.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/xuzhougeng/RNA-seq-downstream-analysis/HEAD/scripts/gene_dot_plot.R -------------------------------------------------------------------------------- /scripts/volcano_plot.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/xuzhougeng/RNA-seq-downstream-analysis/HEAD/scripts/volcano_plot.R --------------------------------------------------------------------------------