Description Usage Arguments Value Examples
Title Plot the similarity
1 2 | plotPredict(trTmMut, predictRef = mSigsitedb, sampleId,
contexts.needed = FALSE, tri.counts.method = "default")
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trTmMut |
Either a data frame or location of input text file, where rows are samples, columns are trinucleotide contexts. Use data(sample.mut.trans) to see the example data. |
predictRef |
Location of the mutation file that is to be converted or name of data frame in environment. "tmMutRef" is the standard signature value for one site. Default value is "mSigsitedb" that convert from "mSignatureDB" database. USe data("mSigsitedb") to see the example dasta. |
sampleId |
Name of sample. |
contexts.needed |
FALSE if tumor.file is a context file, TRUE if it is only mutation counts. |
tri.counts.method |
Set to either:
|
Plot a histogram of similarity scores for one sample with every tumor.
1 | testPriPlot = plotPredict(trTmMut = sample.mut.trans, contexts.needed = TRUE, sampleId = 1)
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