plotRegion: plotRegion
In ssviz: A small RNA-seq visualizer and analysis toolkit
Description
Usage
Arguments
Value
Author(s)
Examples
Description
Plots the read density given a chromosome region.
Usage
1
plotRegion(bamlist, region, howsmooth = 2, ncounts = NULL, samplenames = NULL)
Arguments
bamlist
An object of type list, giving a list of bam files. If you only have 1 file, use list(bam_file)
region
An object of type character defining the region to plot. Eg. chr1:1000-2000
howsmooth
Numeric value controlling smoothness of the plot.
ncounts
Total number of reads for plot normalization.
samplenames
Sample names
Value
Returns the x and y components of the region's reads and plots the density.
Author(s)
Diana H.P. Low
Examples
1
2
3
data(ssviz)
region<-'chr1:3015526-3080526'
plotRegion(list(ctrlbam), region=region)
ssviz documentation built on Nov. 8, 2020, 5:53 p.m.
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Description Usage Arguments Value Author(s) Examples
Description
Plots the read density given a chromosome region.
Usage
1 | plotRegion(bamlist, region, howsmooth = 2, ncounts = NULL, samplenames = NULL)
|
Arguments
bamlist |
An object of type list, giving a list of bam files. If you only have 1 file, use |
region |
An object of type character defining the region to plot. Eg. |
howsmooth |
Numeric value controlling smoothness of the plot. |
ncounts |
Total number of reads for plot normalization. |
samplenames |
Sample names |
Value
Returns the x and y components of the region's reads and plots the density.
Author(s)
Diana H.P. Low
Examples
1 2 3 | data(ssviz)
region<-'chr1:3015526-3080526'
plotRegion(list(ctrlbam), region=region)
|
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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