getPeakReads_batch: Get Reads Within a List of Specified Locations in Batch
In WaveSeqR: A Wavelet-based Method for ChIP-Seq peak calling
Description
Usage
Arguments
Warning
Author(s)
See Also
View source: R/getPeakReads_batch.R
Description
Extracts reads falling within list of putative peaks from
a list of padded bedGraph files and outputs to specified file.
Uses the getPeakReads function.
Usage
1
getPeakReads_batch(peaks, indir, design, outfile)
Arguments
peaks
File containing peak locations in first three columns: chromosome, start, end
indir
Input directory containing padded bedGraph files.
design
Tab-delimited file containing two columns: <file name> <ID>. Files are assumed to be in
indir.
outfile
Output file.
Warning
peaks must be obtained as output by WaveSeqR.
Author(s)
Apratim Mitra
See Also
WaveSeqR documentation built on May 2, 2019, 5:19 p.m.
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Description Usage Arguments Warning Author(s) See Also
View source: R/getPeakReads_batch.R
Description
Extracts reads falling within list of putative peaks from
a list of padded bedGraph files and outputs to specified file.
Uses the getPeakReads function.
Usage
1 | getPeakReads_batch(peaks, indir, design, outfile)
|
Arguments
peaks |
File containing peak locations in first three columns: chromosome, start, end |
indir |
Input directory containing padded bedGraph files. |
design |
Tab-delimited file containing two columns: <file name> <ID>. Files are assumed to be in
|
outfile |
Output file. |
Warning
peaks must be obtained as output by WaveSeqR.
Author(s)
Apratim Mitra
See Also
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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