Files in ShirinG/exprAnalysis
A package for analysing RNA-seq and expression array data
.Rbuildignore
.gitignore
.travis.yml
DESCRIPTION
NAMESPACE
R/Create_overdispersed_countmatrix.R
R/TF_networks.R
R/batch_removal.R
R/data.R
R/diff_limma.R
R/diff_limma_pw.R
R/exprAnalysis.R
R/geneAnnotations.R
R/heatmaps.R
R/module_eigengene_plot.R
R/normalise_eset.R
R/pathview_func.R
R/pcaGoPromoter.R
R/pcaplot.R
R/quality_control_plots.R
R/read_Illumina.R
R/read_bam_to_countmatrix.R
R/var_vs_mean.R
R/wgcna_heatmaps.R
R/wgcna_modulememberships.R
R/wgcna_plotDendroAndColors.R
R/wgcna_sample_dendrogram.R
README.md
Thumbs.db
data/Allgenes_limma_pw.rda
data/DEgenes_pw.rda
data/MEs.rda
data/TFs.rda
data/TFs_paper.rda
data/countmatrix.rda
data/expmatrix.rda
exprAnalysis.Rproj
man/Allgenes_limma_pw.Rd
man/DEgenes_pw.Rd
man/MEs.Rd
man/TF_networks.Rd
man/TFs.Rd
man/TFs_paper.Rd
man/batch_removal.Rd
man/countmatrix.Rd
man/diff_limma_all.Rd
man/diff_limma_pairwise.Rd
man/diff_limma_pw_unfiltered.Rd
man/expmatrix.Rd
man/exprAnalysis.Rd
man/geneAnnotations.Rd
man/heatmaps.Rd
man/module_eigengene_plot.Rd
man/normalise_eset.Rd
man/pathview_func.Rd
man/pca_plot.Rd
man/pca_plot_enrich.Rd
man/quality_control_plots.Rd
man/read_Illumina.Rd
man/read_bam_to_countmatrix.Rd
man/var_vs_mean.Rd
man/wgcna_heatmaps.Rd
man/wgcna_modulememberships.Rd
man/wgcna_plotDendroAndColors.Rd
man/wgcna_sample_dendrogram.Rd
tests/testthat.R
tests/testthat/test-batch_removal.R
tests/testthat/test-test.R
vignettes/CopyOfnetwork_test.png
vignettes/CummeRbund.Rmd
vignettes/Thumbs.db
vignettes/exprAnalysis.Rmd
vignettes/wgcnaHeatmap.png
