GMThyperGTest: Perform a Hypergeometric test, upon a GMT file. Much like...
In drmjc/metaGSEA: Meta-analysis of GSEA analyses, including intra- and inter-experiment comparisons
Description
Usage
Arguments
Value
Author(s)
See Also
View source: R/GSEAhyperGTest.R
Description
The type of identifier used doesn't matter much, as long as the same identifiers are
used in genes and gmt, eg Gene Symbols.
Usage
1
GMThyperGTest(genes, gmt, adjust.method = "none")
Arguments
genes
a vector of gene symbols
gmt
a gmt object. see import.gsea.gmt
adjust.method
the multiple hypothesis correction value. see p.adjust.
default=“none”
Value
a data.frame containing these columns:
“GeneSet”, “x”, “m”, “n”, “k”, “Pval”, “FDR”, where:
“x” = the number of white balls drawn without replacement from an urn which contains both black and white balls.
“m” = the number of white balls in the urn.
“n” = the number of black balls in the urn.
“k” = the number of balls drawn from the urn.
Author(s)
Mark Cowley, 2009-01-15
See Also
drmjc/metaGSEA documentation built on Aug. 8, 2020, 1:53 p.m.
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Description Usage Arguments Value Author(s) See Also
View source: R/GSEAhyperGTest.R
Description
The type of identifier used doesn't matter much, as long as the same identifiers are used in genes and gmt, eg Gene Symbols.
Usage
1 | GMThyperGTest(genes, gmt, adjust.method = "none")
|
Arguments
genes |
a vector of gene symbols |
gmt |
a gmt object. see |
adjust.method |
the multiple hypothesis correction value. see |
Value
a data.frame containing these columns:
“GeneSet”, “x”, “m”, “n”, “k”, “Pval”, “FDR”, where:
“x” = the number of white balls drawn without replacement from an urn which contains both black and white balls.
“m” = the number of white balls in the urn.
“n” = the number of black balls in the urn.
“k” = the number of balls drawn from the urn.
Author(s)
Mark Cowley, 2009-01-15
See Also
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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