Functional enrichment tool

Question

[morteza.kouhsar]

I have about 260 files containing gene lists from Fly, Human and Yeast. I want to analyze each gene list based on GO structure and calculate the P-value of them. I tried to use GOTermFinder and David tools, but these tools can not identify some genes. The GeneCoDis works very good, but it can't take multi-set files as input. Is there any other tools to calculate P-value of a gene list?

Answer 1

[Guangchuang Yu]

https://guangchuangyu.github.io/clusterProfiler is a good choice.

Answer 2

[EagleEye]

GeneSCF command line Tool (Real-time Enrichment analysis) - you can use FOR loop for multiple files.

http://genescf.kandurilab.org/

Discussions

https://www.biostars.org/local/search/page/?q=genescf

[lovedohurt]

test fbsfbfb bb fdbdfbsdf reg erg

Answer 3

[Woa]

http://amp.pharm.mssm.edu/Enrichr/