csawUsersGuide
csaw User's Guide
Bioconductor version: 3.23 · Package version: 1.28.0
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
A user's guide for the csaw package for detecting differentially bound regions in ChIP-seq data. Describes how to read in BAM files to obtain a per-window count matrix, filtering to obtain high-abundance windows of interest, normalization of sample-specific biases, testing for differential binding, consolidation of per-window results to obtain per-region statistics, and annotation and visualization of the DB results.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("csawUsersGuide")Details
| Maintainer | Aaron Lun <infinite.monkeys.with.keyboards@gmail.com> |
| Author | Aaron Lun [aut, cre] |
| License | GPL-3 |
| Source branch | RELEASE_3_23 |
| Build report | Bioconductor build system, r-universe |
| biocViews | EpigeneticsWorkflow, Workflow |
| Package Short Url | https://bioconductor.org/packages/csawUsersGuide/ |
Citation
From within R, enter citation("csawUsersGuide"):
Aaron Lun. csawUsersGuide: csaw User's Guide. doi:10.18129/B9.bioc.csawUsersGuide, R package version 1.28.0, https://bioconductor.org/packages/csawUsersGuide.
Generated from the package metadata; it may differ from the package's own citation.
Download
Follow the installation instructions to use this package in your R session.
| Source package | csawUsersGuide_1.28.0.tar.gz |
Dependencies
Suggests: knitr, BiocStyle, BiocManager