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README.md
In strandCheckR: Calculate strandness information of a bam file
strandCheckR
An R Package that uses a sliding windows approach to scan a bam file and get the number of positive/negative reads in each window.
Applicable to check the strandedness of a stranded RNA-Seq experiment and to filter reads coming from potential double strand DNA if there's any.
Installation
if (!requireNamespace("BiocManager", quietly=TRUE))
install.packages("BiocManager")
BiocManager::install(c("devtools", "BiocStyle", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "BiocGenerics", "TxDb.Hsapiens.UCSC.hg38.knownGene"))
devtools::install_github('UofABioinformaticsHub/strandCheckR', build_vignettes = TRUE)
library(strandCheckR)
Try the strandCheckR package in your browser
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strandCheckR documentation built on Nov. 8, 2020, 7:02 p.m.
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strandCheckR
An R Package that uses a sliding windows approach to scan a bam file and get the number of positive/negative reads in each window.
Applicable to check the strandedness of a stranded RNA-Seq experiment and to filter reads coming from potential double strand DNA if there's any.
Installation
if (!requireNamespace("BiocManager", quietly=TRUE))
install.packages("BiocManager")
BiocManager::install(c("devtools", "BiocStyle", "GenomeInfoDb", "GenomicAlignments", "GenomicRanges", "IRanges", "Rsamtools", "S4Vectors", "BiocGenerics", "TxDb.Hsapiens.UCSC.hg38.knownGene"))
devtools::install_github('UofABioinformaticsHub/strandCheckR', build_vignettes = TRUE)
library(strandCheckR)
Try the strandCheckR package in your browser
Any scripts or data that you put into this service are public.
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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