getReads: Store GenomicRanges of BAM reads in a list
In jeffbhasin/methylaction: MethylAction: Differentially Methylated Regions (DMRs) from MBD-isolated Genome Sequencing (MiGS/MBD-seq)
Description
Usage
Arguments
Value
Description
Store positions of BAM reads in a list of GRanges objects
Usage
1
getReads(samp, chrs, fragsize, ncore)
Arguments
samp
Sample data.frame from readSampleInfo()
chrs
Character vector of chromosome names to select
fragsize
Average fragment length from the sequencing experiment. Reads will be extended up to this size when computing coverage. If set to the value "paired", valid mate pairs for a paired-end sequencing experiment will be loaded instead.
ncore
Number of parallel processes to use
Value
A list of GenomicRanges objects where the ranges represent either extended reads or mate pairs from a BAM file.
jeffbhasin/methylaction documentation built on May 19, 2019, 1:46 a.m.
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Description Usage Arguments Value
Description
Store positions of BAM reads in a list of GRanges objects
Usage
1 | getReads(samp, chrs, fragsize, ncore)
|
Arguments
samp |
Sample data.frame from readSampleInfo() |
chrs |
Character vector of chromosome names to select |
fragsize |
Average fragment length from the sequencing experiment. Reads will be extended up to this size when computing coverage. If set to the value "paired", valid mate pairs for a paired-end sequencing experiment will be loaded instead. |
ncore |
Number of parallel processes to use |
Value
A list of GenomicRanges objects where the ranges represent either extended reads or mate pairs from a BAM file.
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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