runGost | R Documentation |
gprofiler2
's gost
functiontakes a gene clustering, a named vector of gene categories, where
the names are gene IDs, and calls the gost
function of the
gprofiler2
to do enrichment analysis for all gene
annotations available. It then parses the output of the gost
function of the gprofiler2
R package into overlap tables for
use with segmenTools
' cluster analysis pipeline.
runGost(
cls,
organism = "hsapiens",
cls.srt,
categories,
terms,
verb = 1,
significant = FALSE,
...
)
cls |
a name vector of a gene classification, where the names
are gene IDs recognized by |
organism |
the organism ID to which gene IDs of the |
cls.srt |
an optional sorting of gene classes in |
categories |
annotation source categories to report, |
terms |
list of annotation terms to report (over all categories), a name list of terms to report, |
verb |
level of verbosity, 0: no output, 1: progress messages, |
significant |
only report significant hits, option to |
... |
further arguments to |
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