import_peaks: Import peak files
In CharlesJB/hmwrap: Wrapper Functions for ChIP-Seq Heatmaps
Description
Usage
Arguments
Value
Examples
Description
Only works for .narrowPeak or .broadPeak file formats.
Usage
1
import_peaks(filename, genome = NULL, keep_standard_chromosomes = TRUE)
Arguments
filename
Path to the peak file.
genome
Add seqinfo from genome (see ?fetchExtendedChromInfoFromUCSC
for the list of available genomes). Value must be NULL or a character
string (i.e.: "hg38").
keep_standard_chromosomes
Remove alternative chromosomes? (Default: TRUE)
Value
A GRanges corresponding the regions in the peak file.
Examples
1
2
peaks_file <- get_demo_peaks_file()
peaks <- import_peaks(peaks_file)
CharlesJB/hmwrap documentation built on May 26, 2019, 6:42 a.m.
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Description Usage Arguments Value Examples
Description
Only works for .narrowPeak or .broadPeak file formats.
Usage
1 | import_peaks(filename, genome = NULL, keep_standard_chromosomes = TRUE)
|
Arguments
filename |
Path to the peak file. |
genome |
Add seqinfo from genome (see ?fetchExtendedChromInfoFromUCSC for the list of available genomes). Value must be NULL or a character string (i.e.: "hg38"). |
keep_standard_chromosomes |
Remove alternative chromosomes? (Default: TRUE) |
Value
A GRanges corresponding the regions in the peak file.
Examples
1 2 | peaks_file <- get_demo_peaks_file()
peaks <- import_peaks(peaks_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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