ICAMS: CreatePPMFromSBSVCFs – R documentation

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CreatePPMFromSBSVCFs

Create position probability matrices (PPM) from a list of SBS vcfs

Create position probability matrices (PPM) from a list of SBS vcfs

CreatePPMFromSBSVCFs(list.of.SBS.vcfs, ref.genome, seq.context.width)

`list.of.SBS.vcfs`	List of in-memory data frames of pure SBS mutations – no DBS or 3+BS mutations.
`ref.genome`	A `ref.genome` argument as described in `ICAMS`.
`seq.context.width`	The number of preceding and following bases to be extracted around the mutated position from `ref.genome`.

A list of position probability matrices (PPM).

In-Depth Characterization and Analysis of Mutational Signatures ('ICAMS')

v2.3.10

GPL-3 | file LICENSE

Authors

Steve Rozen, Nanhai Jiang, Arnoud Boot, Mo Liu, Yang Wu

Initial release