QuasR

This is the development version of QuasR; for the stable release version, see QuasR.

Quantify and Annotate Short Reads in R

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DOI: 10.18129/B9.bioc.QuasR

Bioconductor version: Development (3.23)

This package provides a framework for the quantification and analysis of Short Reads. It covers a complete workflow starting from raw sequence reads, over creation of alignments and quality control plots, to the quantification of genomic regions of interest. Read alignments are either generated through Rbowtie (data from DNA/ChIP/ATAC/Bis-seq experiments) or Rhisat2 (data from RNA-seq experiments that require spliced alignments), or can be provided in the form of bam files.

Author: Anita Lerch [aut], Adam Alexander Thil SMITH [aut] ORCID iD ORCID: 0000-0003-4593-3042 , Charlotte Soneson [aut] ORCID iD ORCID: 0000-0003-3833-2169 , Dimos Gaidatzis [aut], Michael Stadler [aut, cre] ORCID iD ORCID: 0000-0002-2269-4934

Maintainer: Michael Stadler <michael.stadler at fmi.ch>

Citation (from within R, enter citation("QuasR")):

Installation

To install this package, start R (version "4.6") and enter:


if (!require("BiocManager", quietly = TRUE))
 install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("QuasR")

For older versions of R, please refer to the appropriate Bioconductor release.