get_shm_motifs: Get Somatic Hypermutation (SHM) Motif Locations
In tinyheero/shmutils: Utility Functions to Look for Somatic Hypermutation
Description
Usage
Arguments
Value
Description
Reports the location of the SHM motifs within the GenomicRange (gr) object.
Usage
1
get_shm_motifs(gr, bs.genome)
Arguments
gr
GenomicRanges object. There needs to be a id column in the metadata.
So that the motifs can be associated with the original GenomicRange.
BS.genome
This a Biostring-based genome object. (BSgenome from
Bioconductor). For instance, library("BSgenome.Hsapiens.UCSC.hg19")
can be used.
Value
A list of IRanges objects with the names being RGYW and WRCY.
Each value is an IRanges object containing the relatives
coordinates of the motifs with respect to the original GenomicRange.
tinyheero/shmutils documentation built on May 31, 2019, 3:36 p.m.
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Description Usage Arguments Value
Description
Reports the location of the SHM motifs within the GenomicRange (gr) object.
Usage
1 | get_shm_motifs(gr, bs.genome)
|
Arguments
gr |
GenomicRanges object. There needs to be a id column in the metadata. So that the motifs can be associated with the original GenomicRange. |
BS.genome |
This a Biostring-based genome object. (BSgenome from Bioconductor). For instance, library("BSgenome.Hsapiens.UCSC.hg19") can be used. |
Value
A list of IRanges objects with the names being RGYW and WRCY. Each value is an IRanges object containing the relatives coordinates of the motifs with respect to the original GenomicRange.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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