User: simonp.snoeck

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Answer: A: piano runGSA with input from DESEQ2
... Thanks Leif, About those low p-values, how should we interpret the following case; Genes (up) Stat (mix.dir.up) p (mix.dir.up) p adj (mix.dir.up) Genes (down) Stat (mix.dir.dn) p (mix.dir.dn) p adj (mix.dir.dn) 13 1714.4 0 0 1 16.757 0.00022 ...
written 12 months ago by simonp.snoeck0
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piano runGSA with input from DESEQ2
... Hi, For performing a gene enrichment analysis, we used the following settings for the R-function runGSA (piano package); gsaRes_xxx<-runGSA(pval_xxx, geneSetStat="fisher", directions=fc_xxx, signifMethod="nullDist", adjMethod="BH", gsc=gsc, gsSizeLim=c(5,Inf)) with: fc_xxx = log2fc of genes ( ...
deseq2 gene ontology piano written 12 months ago by simonp.snoeck0

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