Create a motif x feature matrix from a set of genomic ranges, the genome, and a set of position weight matrices.
CreateMotifMatrix(
features,
pwm,
genome,
score = FALSE,
use.counts = FALSE,
sep = c("-", "-"),
...
)
features | A GRanges object containing a set of genomic features |
---|---|
pwm | A |
genome | Any object compatible with the |
score | Record the motif match score, rather than presence/absence (default FALSE) |
use.counts | Record motif counts per region. If FALSE (default),
record presence/absence of motif. Only applicable if |
sep | A length-2 character vector containing the separators to be used when constructing matrix rownames from the GRanges |
... | Additional arguments passed to
|
Returns a sparse matrix
Requires that motifmatchr is installed https://www.bioconductor.org/packages/motifmatchr/.