HGTGeneEnrichmentList: HGTGeneEnrichmentList Calculates the p-values for unranked...
In broadinstitute/ImagingAMARETTO: ImagingAMARETTO: tools for interpreting multi-omics networks for relevance to clinical outcomes and radiographic and histopathology imaging-derived biomarkers
View source: R/cAMARETTO_HTMLreport.R
Description
HGTGeneEnrichmentList
Calculates the p-values for unranked gene set enrichment based on two gmt files as input and the hyper geometric test.
Usage
1
HGTGeneEnrichmentList(genelist, gmtfile, NrCores, ref.numb.genes = 45956)
Arguments
genelist
The gmt file with reference gene set.
gmtfile
The gmt file with gene sets to test. In our case, the gmt file of the modules.
NrCores
Number of cores used for parallelization.
ref.numb.genes
The total number of genes teste, standard equal to 45956 (MSIGDB standard).
broadinstitute/ImagingAMARETTO documentation built on Dec. 3, 2019, 6:38 p.m.
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View source: R/cAMARETTO_HTMLreport.R
Description
HGTGeneEnrichmentList
Calculates the p-values for unranked gene set enrichment based on two gmt files as input and the hyper geometric test.
Usage
1 | HGTGeneEnrichmentList(genelist, gmtfile, NrCores, ref.numb.genes = 45956)
|
Arguments
genelist |
The gmt file with reference gene set. |
gmtfile |
The gmt file with gene sets to test. In our case, the gmt file of the modules. |
NrCores |
Number of cores used for parallelization. |
ref.numb.genes |
The total number of genes teste, standard equal to 45956 (MSIGDB standard). |
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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