getCoverage: caculate read coverage in the flanking region of target exons
In huqiwen0313/HM_splicing: Random forest based approach for detecting regulatory histone marks associated with splicing patterns
Description
Usage
Arguments
Value
View source: R/data.processing.R
Description
caculate read coverage in the flanking region of target exons
Usage
1
getCoverage(bamfile, region, flanking.ws = 150, read.tag.names = F)
Arguments
bamfile
- bam file of chip-seq data (bowtie alignment)
region
- a dataframe indicate chromosome, target exon start and target exon end position
Value
list contain: 1. vector of read coverage of each individual position in the left flanking region
2. vector of read coverage of each individual position in the right flanking region
3. total library size of bam file
huqiwen0313/HM_splicing documentation built on May 5, 2020, 12:36 p.m.
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Description Usage Arguments Value
View source: R/data.processing.R
Description
caculate read coverage in the flanking region of target exons
Usage
1 | getCoverage(bamfile, region, flanking.ws = 150, read.tag.names = F)
|
Arguments
bamfile |
- bam file of chip-seq data (bowtie alignment) |
region |
- a dataframe indicate chromosome, target exon start and target exon end position |
Value
list contain: 1. vector of read coverage of each individual position in the left flanking region 2. vector of read coverage of each individual position in the right flanking region 3. total library size of 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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