Description Usage Arguments Author(s) See Also Examples
Fast Molecular Signatures Analysis via clusterProfilter
1 2 3 4 |
genes |
a character of genes.The ENSEMBL id is the best.Note that no replicate should exist. |
geneList |
a named numeric of genes.The ENSEMBL id is the best.Note that no replicate should exist. |
default.universe |
whether to use default universe.If |
pAdjustMethod |
the mathod of pvalue adjustment |
pvalueCutoff |
a list of pvalue adjust method for |
qvalueCutoff |
cutoff of q value |
cnet.showCategory |
the number of showed cluster at cnetplot |
verbose |
LuckyVerbose gseplot running message or not |
save.path |
the sub path of saved files |
names |
the main path and part names of saved files |
Weibin Huang<654751191@qq.com>
1 2 3 4 5 6 7 8 9 10 11 12 13 | data(geneList, package = "DOSE")
genes = names(geneList)[1:100]
geneList = geneList
ms <- FastMS(genes,
geneList,
pAdjustMethod = "BH",
pvalueCutoff = list(enrichMS=0.00001,
gseMS = 0.00001),
qvalueCutoff = 0.2,
cnet.showCategory = 5,
verbose = TRUE,
save.path = "Molecular Signatures",
names = "love")
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