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 |
Node degree distribution and network scale-freeness |
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 |