maftools_extract_geneset_by_altered_samples: Extract geneset
In CCICB/CRUX: Easily explore patterns of somatic variation in cancer using 'CRUX'
maftools_extract_geneset_by_altered_samples R Documentation
Extract geneset
Description
Create a genelist containing the genes mutated in the most samples in a maf.
If topn > total number of mutated genes then all mutated genes are returned.
Usage
maftools_extract_geneset_by_altered_samples(maf, topn = 100)
Arguments
maf
tab delimited MAF file. File can also be gz compressed. Required. Alternatively, you can also provide already read MAF file as a dataframe.
topn
How many genes to include in the gene-set.
Value
The names of genes mutated in the most samples (character vector).
Examples
CRUX:::maftools_extract_geneset_by_altered_samples(maftools::tcgaLoad("GBM"), topn=50)
CCICB/CRUX documentation built on Jan. 28, 2024, 10:12 p.m.
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| maftools_extract_geneset_by_altered_samples | R Documentation |
Extract geneset
Description
Create a genelist containing the genes mutated in the most samples in a maf. If topn > total number of mutated genes then all mutated genes are returned.
Usage
maftools_extract_geneset_by_altered_samples(maf, topn = 100)
Arguments
maf |
tab delimited MAF file. File can also be gz compressed. Required. Alternatively, you can also provide already read MAF file as a dataframe. |
topn |
How many genes to include in the gene-set. |
Value
The names of genes mutated in the most samples (character vector).
Examples
CRUX:::maftools_extract_geneset_by_altered_samples(maftools::tcgaLoad("GBM"), topn=50)
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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