fitMutSigs: Performs optimal fitting of the contribution of mutational...
In J0bbie/R2CPCT: Misc. functions to perform import and analysis of WGS and RNA-Seq samples
Description
Usage
Arguments
Details
Value
Examples
View source: R/analysisWGS_fitMutSigs.R
Description
Performs optimal fitting of the contribution of mutational signatures.
Usage
1
fitMutSigs(dataMuts, restrictiveFit = FALSE)
Arguments
dataMuts
(VRanges): VRanges containing the mutations which will used as input.
restrictiveFit
(logical): Should restrictive (strict) fitting be performed instead of using all signatures, see fit_to_signatures_bootstrapped?
Details
Performs mutational signature fitting against the COSMIC / Alexandrov signatures (v3.1/June 2020).
It does this for SNV, InDels and MNV patterns.
Value
(list) Returns a list of relevant mutational signature output.
Examples
1
2
data.Cohort <- R2CPCT::importWGSOfCohort(<cpctIds>, <combinedData>)
data.MutSigs <- R2CPCT::fitMutSigs(data.Cohort$somaticVariants)
J0bbie/R2CPCT documentation built on Feb. 24, 2022, 8:15 a.m.
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Description Usage Arguments Details Value Examples
View source: R/analysisWGS_fitMutSigs.R
Description
Performs optimal fitting of the contribution of mutational signatures.
Usage
1 | fitMutSigs(dataMuts, restrictiveFit = FALSE)
|
Arguments
dataMuts |
(VRanges): VRanges containing the mutations which will used as input. |
restrictiveFit |
(logical): Should restrictive (strict) fitting be performed instead of using all signatures, see fit_to_signatures_bootstrapped? |
Details
Performs mutational signature fitting against the COSMIC / Alexandrov signatures (v3.1/June 2020). It does this for SNV, InDels and MNV patterns.
Value
(list) Returns a list of relevant mutational signature output.
Examples
1 2 | data.Cohort <- R2CPCT::importWGSOfCohort(<cpctIds>, <combinedData>)
data.MutSigs <- R2CPCT::fitMutSigs(data.Cohort$somaticVariants)
|
R Package Documentation
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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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