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Functional enrichment tool

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?

functional-enrichment p-value go
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updated by Ram Ram • written by morteza.kouhsar • morteza.kouhsar

3 answers

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

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written by Guangchuang Yu Guangchuang Yu

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

http://genescf.kandurilab.org/

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

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written by EagleEye EagleEye

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

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written by Woa Woa

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