I am developing an algorithm to predict protein complex and I want to measure the GO enrichment for all the predicted complexes
which tool should I use to do such analysis for all predicted complexes not only for a single complex
I recommend OmicsBox with its Functional Analysis modul, the former Blast2GO.
https://www.biobam.com/omicsbox/ There is a trial version available.
You can use:.
GOstats
http://www.bioconductor.org/packages/release/bioc/vignettes/GOstats/inst/doc/GOvis.pdf
topGo https://bioconductor.org/packages/release/bioc/vignettes/topGO/inst/doc/topGO.pdf
Hi, I suggest
1.STRAP for GO Annotation (http://www.bumc.bu.edu/cardiovascularproteomics/cpctools/strap/),
2.BLAST2GO;
3. REVIGO by Panther enrichment values to make a protein complex network map.
Hope its useful.
Rajesh
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