Network Enrichment Analysis


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Documentation for package ‘NEArender’ version 1.5

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as_genes_fgs Create single-gene FGS
benchmark Benchmark networks using Network Enrichment Analysis (NEA)
can.sig.go Example functional gene sets (FGS) from GO and KEGG
connectivity Connectivity
fantom5.43samples A Fantom5 transcriptomes in 43 carincinoma cell samples
gsea.render Gene Set Enrichment Analysis (GSEA)
import.gs Read in an AGS or FGS test file
import.net Import a network text file
mutations2ags Create AGS from a mutation matrix
nea.render Network Enrichment Analysis (NEA)
net.kegg A more compact alternative global network for the network enrichment analysis
roc ROC for NEA benchmarks
samples2ags Create AGS from a raw data matrix.
save_gs_list Create a TAB-delimited text file from AGS or FGS
tcga.gbm NEArender
topology2nd Higher order topology and correlation between node degrees