get_readpairs2: Extract reads from a bam file
In cancer-genomics/trellis: Somatic structural variant analysis
View source: R/alignment-utils.R
get_readpairs2 R Documentation
Extract reads from a bam file
Description
Parses a BAM file for read pairs near intervals specified by a GRanges object and
returns the read pairs in a GAlignmentPairs object.
Usage
get_readpairs2(g, bam.file, flags = scanBamFlag())
Arguments
g
A GRanges object
bam.file
A character vector of the path to a bam file
flags
A length-two integer vector as given by scanBamFlags
Value
A GAlignmentPairs object
See Also
get_readpairs
cancer-genomics/trellis documentation built on Feb. 2, 2023, 7:04 p.m.
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View source: R/alignment-utils.R
| get_readpairs2 | R Documentation |
Extract reads from a bam file
Description
Parses a BAM file for read pairs near intervals specified by a GRanges object and
returns the read pairs in a GAlignmentPairs object.
Usage
get_readpairs2(g, bam.file, flags = scanBamFlag())
Arguments
g |
A |
bam.file |
A character vector of the path to a bam file |
flags |
A length-two integer vector as given by |
Value
A GAlignmentPairs object
See Also
get_readpairs
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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