ICAMS: GetGenomeKmerCounts – R documentation

Become an expert in R — Interactive courses, Cheat Sheets, certificates and more!

GetGenomeKmerCounts

Generate k-mer abundance from a given genome

Generate k-mer abundance from a given genome

GetGenomeKmerCounts(k, ref.genome, filter.path, verbose = FALSE)

`k`	Length of k-mers (k>=2)
`ref.genome`	A `ref.genome` argument as described in `ICAMS`.
`filter.path`	If given, homopolymers will be masked from genome(sequence). Only simple repeat masking is accepted now.
`verbose`	If `TRUE`, generate progress messages.

Matrix of the counts of each k-mer across the ref.genome

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