read_atac_frags: Read BAM file aligned fragments into GRanges object
In SamBuckberry/RunATAC: Functions for Importing, Processing, Analyzing, Plotting and Reformatting ATAC-seq Data
Description
Usage
Arguments
Value
View source: R/read_atac_frags.R
Description
Read BAM file aligned fragments into GRanges object
Usage
1
read_atac_frags(bam_file, max_insert = 2000, yieldSize = 1e+06, ...)
Arguments
bam_file
Path to a BAM formatted file.
max_insert
Maximum insert size allowed. Default is reccomended.
yieldSize
The number of reads retreived from the BAM file in each chunk.
See ?BamFile in Rsamtools.
...
Arguments passed to ScanBamParam.
Value
A GRanges object of aligned fragments
SamBuckberry/RunATAC documentation built on Aug. 2, 2021, 9:54 a.m.
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Description Usage Arguments Value
View source: R/read_atac_frags.R
Description
Read BAM file aligned fragments into GRanges object
Usage
1 | read_atac_frags(bam_file, max_insert = 2000, yieldSize = 1e+06, ...)
|
Arguments
bam_file |
Path to a BAM formatted file. |
max_insert |
Maximum insert size allowed. Default is reccomended. |
yieldSize |
The number of reads retreived from the BAM file in each chunk. See ?BamFile in Rsamtools. |
... |
Arguments passed to ScanBamParam. |
Value
A GRanges object of aligned fragments
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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