cnmutData: Generate the SCNA SSNV input for running butte
In SunPathLab/Butte: BoUnds of Time Till Expansion, inferring the SCNA arrival time in the somatic evolution toward the most recent common ancestor of tumor sample(s).
cnmutData R Documentation
Generate the SCNA SSNV input for running butte
Description
Four elements will be generated in the output list
merged CNA segmentation;
SSNV data.frame;
cnvHits (index in CNA file, overlapping ssnv)
snvHits (index in SSNV file, overlapping with cnv)
Usage
cnmutData(scnaFile, ssnvFile, skipchunk = 19)
Arguments
scnaFile
the SCNA segmentation file
ssnvFile
the SSNV file
skipchunk
segments with number of data points (probes) no more than this number will be skipped, set it to zero if not skipped
Value
list of data input for running butte
SunPathLab/Butte documentation built on Sept. 19, 2023, 9:42 a.m.
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| cnmutData | R Documentation |
Generate the SCNA SSNV input for running butte
Description
Four elements will be generated in the output list merged CNA segmentation; SSNV data.frame; cnvHits (index in CNA file, overlapping ssnv) snvHits (index in SSNV file, overlapping with cnv)
Usage
cnmutData(scnaFile, ssnvFile, skipchunk = 19)
Arguments
scnaFile |
the SCNA segmentation file |
ssnvFile |
the SSNV file |
skipchunk |
segments with number of data points (probes) no more than this number will be skipped, set it to zero if not skipped |
Value
list of data input for running butte
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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