NEArender: Network Enrichment Analysis

Performs network enrichment analysis against functional gene sets. Benchmarks networks. Renders raw gene profile matrices of dimensionality 'Ngenes x Nsamples' into the space of gene set (typically pathway) enrichment scores of dimensionality 'Npathways x Nsamples'.

AuthorAndrey Alexeyenko [aut, cph, ths], Ashwini Jeggari [aut, cre]
Date of publication2016-12-05 18:28:46
MaintainerAshwini Jeggari <ashwinipriya.jeggari@ki.se>
LicenseGPL-3
Version1.4

View on CRAN

Files in this package

NEArender
NEArender/inst
NEArender/inst/doc
NEArender/inst/doc/NEArender_vignette.R
NEArender/inst/doc/NEArender_vignette.Rmd
NEArender/inst/doc/NEArender_vignette.pdf
NEArender/NAMESPACE
NEArender/data
NEArender/data/can.sig.go.RData
NEArender/data/net.kegg.RData
NEArender/data/fantom5.43samples.RData
NEArender/data/datalist
NEArender/data/tcga.gbm.RData
NEArender/R
NEArender/R/gsea-render.r
NEArender/R/connectivity.r
NEArender/R/benchmark.r
NEArender/R/save_gs_list.r
NEArender/R/sample2ags.r
NEArender/R/as-genes-fgs.r
NEArender/R/roc.r
NEArender/R/mutations2ags.r
NEArender/R/nea-data.r
NEArender/R/topology2nd.r
NEArender/R/nea-render.r
NEArender/R/import-net.r
NEArender/R/import-gs.r
NEArender/R/heatplot.r
NEArender/R/char2int.r
NEArender/vignettes
NEArender/vignettes/NEArender_vignette.Rmd
NEArender/MD5
NEArender/build
NEArender/build/vignette.rds
NEArender/DESCRIPTION
NEArender/man
NEArender/man/as_genes_fgs.Rd NEArender/man/fantom5.43samples.Rd NEArender/man/net.kegg.Rd NEArender/man/benchmark.Rd NEArender/man/save_gs_list.Rd NEArender/man/connectivity.Rd NEArender/man/import.gs.Rd NEArender/man/can.sig.go.Rd NEArender/man/nea.render.Rd NEArender/man/tcga.gbm.Rd NEArender/man/samples2ags.Rd NEArender/man/topology2nd.Rd NEArender/man/gsea.render.Rd NEArender/man/mutations2ags.Rd NEArender/man/char2int.Rd NEArender/man/roc.Rd NEArender/man/set.heat.Rd NEArender/man/import.net.Rd

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