count.clips: Return data.frame with fields of "right" soft clips and...
In mskilab/bamUtils: Utility functions for manipulating BAMs
count.clips R Documentation
Return data.frame with fields of "right" soft clips and "left" soft clips
Description
Takes GRanges or GappedAlignments object and uses cigar field (or takes character vector of cigar strings)
and returns data.frame with fields (for character input)
$right.clips number of "right" soft clips (e.g. cigar 89M12S)
$left.clips number of "left" soft clips (e.g. cigar 12S89M),
or appends these fields to the reads object
Usage
count.clips(reads)
Arguments
reads
GenomicRanges or GappedAlignments or data.frame or data.table holding the reads
Value
GRanges with 'right.clips' and 'left.clips' columns added
mskilab/bamUtils documentation built on Sept. 28, 2022, 3:45 p.m.
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| count.clips | R Documentation |
Return data.frame with fields of "right" soft clips and "left" soft clips
Description
Takes GRanges or GappedAlignments object and uses cigar field (or takes character vector of cigar strings) and returns data.frame with fields (for character input) $right.clips number of "right" soft clips (e.g. cigar 89M12S) $left.clips number of "left" soft clips (e.g. cigar 12S89M), or appends these fields to the reads object
Usage
count.clips(reads)
Arguments
reads |
GenomicRanges or GappedAlignments or data.frame or data.table holding the reads |
Value
GRanges with 'right.clips' and 'left.clips' columns added
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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