Files in HuntsmanCancerInstitute/hciR
RNA-seq workflows at HCI

.Rbuildignore
.gitignore
DESCRIPTION
NAMESPACE
R/annotate_results.R R/as_matrix.R R/check_contrasts.R R/data.R R/deseq_from_tibble.R R/extract_samples.R R/fgsea_all.R R/filter_counts.R R/filter_top_counts.R R/fisher_all.R R/fisher_barplot.R R/gage_all.R R/gdc_coldata.R R/gdc_rowdata.R R/gene_intersect.R R/globalVar.R R/palette255.R R/pipe.R R/plot_biotypes.R R/plot_counts.R R/plot_dist.R R/plot_fgsea.R R/plot_filter.R R/plot_gage.R R/plot_genes.R R/plot_gsea.R R/plot_interactions.R R/plot_ma.R R/plot_pca.R R/plot_volcano.R R/r_log.R R/read_RSEM.R R/read_RnaSeqMetrics.R R/read_STAR.R R/read_biomart.R R/read_featureCounts.R R/read_gsea.R R/read_idxstats.R R/read_sample_files.R R/results2.R R/results_all.R R/sort_counts.R R/sort_samples.R R/summary_DESeq.R R/summary_tibble.R R/top_counts.R R/top_genes.R R/write_deseq.R R/write_gsea_rnk.R README.md
data/pasilla.rda
docs/TCGA.html
docs/pasilla_flex.html
docs/volcano.html
inst/extdata/liver_counts.tsv
inst/extdata/liver_samples.tsv
inst/extdata/pasilla_counts.tsv
inst/extdata/pasilla_samples.tsv
man/annotate_results.Rd man/as_matrix.Rd man/check_contrasts.Rd man/deseq_from_tibble.Rd man/extract_samples.Rd man/fgsea_all.Rd man/filter_counts.Rd man/filter_top_counts.Rd man/fisher_all.Rd man/fisher_barplot.Rd man/gage_all.Rd man/gdc_coldata.Rd man/gdc_rowdata.Rd man/gene_intersect.Rd man/palette255.Rd man/pasilla.Rd man/plot_biotypes.Rd man/plot_counts.Rd man/plot_dist.Rd man/plot_fgsea.Rd man/plot_filter.Rd man/plot_gage.Rd man/plot_genes.Rd man/plot_gsea.Rd man/plot_interactions.Rd man/plot_ma.Rd man/plot_pca.Rd man/plot_volcano.Rd man/r_log.Rd man/read_RSEM.Rd man/read_RnaSeqMetrics.Rd man/read_STAR.Rd man/read_biomart.Rd man/read_featureCounts.Rd man/read_gsea.Rd man/read_idxstats.Rd man/read_sample_files.Rd man/reexports.Rd man/results2.Rd man/results_all.Rd man/sort_counts.Rd man/sort_samples.Rd man/summary_DESeq.Rd man/summary_tibble.Rd man/top_counts.Rd man/top_genes.Rd man/write_deseq.Rd man/write_gsea_rnk.Rd vignettes/Ensembl.Rmd vignettes/Ensembl.md vignettes/Liver.Rmd vignettes/Liver.md
vignettes/Liver_files/figure-gfm/dist-1.png
vignettes/Liver_files/figure-gfm/enrich1-1.png
vignettes/Liver_files/figure-gfm/enrich2-1.png
vignettes/Liver_files/figure-gfm/gene_heatmap1-1.png
vignettes/Liver_files/figure-gfm/gene_heatmap2-1.png
vignettes/Liver_files/figure-gfm/gene_heatmap3-1.png
vignettes/Liver_files/figure-gfm/interactionPlot-1.png
vignettes/Liver_files/figure-gfm/pcaplot-1.png
vignettes/Liver_files/figure-gfm/plotfgsea-1.png
vignettes/Liver_files/figure-gfm/volcano-1.png
vignettes/Pasilla.Rmd vignettes/Pasilla.md
vignettes/Pasilla_files/figure-gfm/dist-1.png
vignettes/Pasilla_files/figure-gfm/gene_heatmap1c-1.png
vignettes/Pasilla_files/figure-gfm/pcaplot-1.png
vignettes/Pasilla_files/figure-gfm/plot1-1.png
vignettes/Pasilla_files/figure-gfm/plot_filter-1.png
vignettes/Pasilla_files/figure-gfm/volcano-1.png
HuntsmanCancerInstitute/hciR documentation built on Nov. 15, 2019, 1:37 p.m.