Mercurial > repos > iuc > fgsea
changeset 2:17eb1e0d711f draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fgsea commit 7f92023de5d3d922ad6cfd22f4de263b56127a1c
| author | iuc |
|---|---|
| date | Mon, 06 May 2019 04:45:25 -0400 |
| parents | 101b208a3e1a |
| children | |
| files | fgsea.R fgsea.xml |
| diffstat | 2 files changed, 3 insertions(+), 1 deletions(-) [+] |
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--- a/fgsea.R Sat Feb 09 12:22:37 2019 -0500 +++ b/fgsea.R Mon May 06 04:45:25 2019 -0400 @@ -56,6 +56,8 @@ pathways <- get(pathways) } +# need to set seed for reproducibility https://github.com/ctlab/fgsea/issues/12 +set.seed(42) fgseaRes <- fgsea(pathways, ranks, minSize=min_size, maxSize=max_size, nperm=n_perm) fgseaRes <- fgseaRes[order(pval), ] # Convert leadingEdge column from list to character to output
--- a/fgsea.xml Sat Feb 09 12:22:37 2019 -0500 +++ b/fgsea.xml Mon May 06 04:45:25 2019 -0400 @@ -1,4 +1,4 @@ -<tool id="fgsea" name="fgsea" version="1.8.0"> +<tool id="fgsea" name="fgsea" version="1.8.0+galaxy1"> <description>- fast preranked gene set enrichment analysis</description> <requirements> <requirement type="package" version="1.8.0">bioconductor-fgsea</requirement>