get_cds_reads: Filter an RPF GR for overlap with coding sequences
In zslastman/RiboStan: Estimates Isoform Specific RPF Footprint Densities
get_cds_reads R Documentation
Filter an RPF GR for overlap with coding sequences
Description
Filter an RPF GR for overlap with coding sequences
Usage
get_cds_reads(cov, anno)
Arguments
cov
GRanges; A granges object with
anno
An annotation object
Details
This function reads in a bam file containing ribosomal footprints.
It uses only reads without splice sites
and reads which align to the positive strand, as it's designed to work on
transcriptomic alignments.
Value
This function returns a granges object with the read names in the
names slot and a metadata column
denoting readlength.
Author(s)
Dermot Harnett, dermot.p.harnett@gmail.com
See Also
get_cds_reads, get_readlens
zslastman/RiboStan documentation built on June 12, 2024, 1:59 a.m.
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| get_cds_reads | R Documentation |
Filter an RPF GR for overlap with coding sequences
Description
Filter an RPF GR for overlap with coding sequences
Usage
get_cds_reads(cov, anno)
Arguments
cov |
GRanges; A granges object with |
anno |
An annotation object |
Details
This function reads in a bam file containing ribosomal footprints. It uses only reads without splice sites and reads which align to the positive strand, as it's designed to work on transcriptomic alignments.
Value
This function returns a granges object with the read names in the names slot and a metadata column denoting readlength.
Author(s)
Dermot Harnett, dermot.p.harnett@gmail.com
See Also
get_cds_reads, get_readlens
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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