Global functions | |
---|---|
[,mutSignExposures,numeric,ANY,ANY-method | Man page |
[,mutSignExposures,numeric-method | Man page |
[,mutationCounts,numeric,ANY,ANY-method | Man page |
[,mutationCounts,numeric-method | Man page |
[,mutationSignatures,numeric,ANY,ANY-method | Man page |
[,mutationSignatures,numeric-method | Man page |
addWeak | Man page |
alexaNMF | Man page Source code |
as.data.frame,mutSignExposures-method | Man page |
as.data.frame,mutationCounts-method | Man page |
as.data.frame,mutationSignatures-method | Man page |
as.list,mutFrameworkParams-method | Man page |
as.list,mutationSignatures-method | Man page |
as.matrix,mutationCounts-method | Man page |
as.mutation.counts | Man page |
as.mutation.counts,data.frame,ANY,ANY-method | Man page |
as.mutation.counts,data.frame-method | Man page |
as.mutation.signatures | Man page |
as.mutation.signatures,data.frame-method | Man page |
as.mutsign.exposures | Man page |
as.mutsign.exposures,data.frame,logical-method | Man page |
attachContext | Man page Source code |
attachMutType | Man page Source code |
bootstrapCancerGenomes | Man page |
cbind2 | Man page |
cbind2,mutationSignatures,mutationSignatures-method | Man page |
chihJenNMF | Man page Source code |
coerceObj | Man page |
coerceObj,data.frame,character-method | Man page |
coerceObj,mutFrameworkParams,character-method | Man page |
coerceObj,mutSignExposures,character-method | Man page |
coerceObj,mutationCounts,character-method | Man page |
coerceObj,mutationSignatures,character-method | Man page |
countMutTypes | Man page |
custom_cssls | Man page |
custom_fcnnls | Man page |
decipherMutationalProcesses | Man page |
deconvoluteMutCounts | Man page Source code |
evaluateStability | Man page |
extractSignatures | Man page |
extractXvarlinkData | Man page Source code |
filterOutIterations | Man page |
filterSNV | Man page Source code |
frequencize | Man page Source code |
getCosmicSignatures | Man page Source code |
getCounts | Man page |
getCounts,mutationCounts-method | Man page |
getFwkParam | Man page |
getFwkParam,mutFrameworkParams,character-method | Man page |
getMutationTypes | Man page |
getMutationTypes,mutationCounts-method | Man page |
getMutationTypes,mutationSignatures-method | Man page |
getSampleIdentifiers | Man page |
getSampleIdentifiers,mutSignExposures-method | Man page |
getSampleIdentifiers,mutationCounts-method | Man page |
getSignatureIdentifiers | Man page |
getSignatureIdentifiers,mutSignExposures-method | Man page |
getSignatureIdentifiers,mutationSignatures-method | Man page |
getTestRunArgs | Man page |
importVCFfiles | Man page Source code |
initialize,mutFrameworkParams-method | Man page |
initialize,mutSignExposures-method | Man page |
initialize,mutationCounts-method | Man page |
initialize,mutationSignatures-method | Man page |
leadZeros | Man page |
matchSignatures | Man page Source code |
msigPlot | Man page |
msigPlot,mutSignExposures-method | Man page |
msigPlot,mutationCounts-method | Man page |
msigPlot,mutationSignatures-method | Man page |
mutFrameworkParams-class | Man page |
mutSigData | Man page |
mutSignExposures-class | Man page |
mutSignatures-package | Man page |
mutationCounts-class | Man page |
mutationSignatures-class | Man page |
plotMutTypeProfile | Man page Source code |
plotSignExposures | Man page Source code |
prelimProcessAssess | Man page Source code |
print,mutFrameworkParams-method | Man page |
print,mutSignExposures-method | Man page |
print,mutationCounts-method | Man page |
print,mutationSignatures-method | Man page |
processVCFdata | Man page Source code |
removeMismatchMut | Man page Source code |
removeWeak | Man page |
resolveMutSignatures | Man page Source code |
revCompl | Man page |
setFwkParam | Man page |
setFwkParam,mutFrameworkParams,character,ANY-method | Man page |
setFwkParam,mutFrameworkParams,character-method | Man page |
setMutClusterParams | Man page Source code |
show,mutFrameworkParams-method | Man page |
show,mutSignExposures-method | Man page |
show,mutationCounts-method | Man page |
show,mutationSignatures-method | Man page |
silhouetteMLB | Man page |
simplifySignatures | Man page Source code |
sortByMutations | Man page Source code |
table2df | Man page Source code |
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