TarSeqQC

DOI: 10.18129/B9.bioc.TarSeqQC    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see TarSeqQC.

TARgeted SEQuencing Experiment Quality Control

Bioconductor version: 3.8

The package allows the representation of targeted experiment in R. This is based on current packages and incorporates functions to do a quality control over this kind of experiments and a fast exploration of the sequenced regions. An xlsx file is generated as output.

Author: Gabriela A. Merino, Cristobal Fresno, Yanina Murua, Andrea S. Llera and Elmer A. Fernandez

Maintainer: Gabriela Merino <merino.gabriela33 at gmail.com>

Installation

To install this package, start R (version "3.5") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("TarSeqQC")

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

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("TarSeqQC")

 

PDF	R Script	TarSeqQC: Targeted Sequencing Experiment Quality Control
PDF		Reference Manual
Text		NEWS

Details

biocViews	Alignment, Coverage, DataImport, QualityControl, Sequencing, Software, TargetedResequencing, Visualization
Version	1.12.0
In Bioconductor since	BioC 3.2 (R-3.2) (3.5 years)
License	GPL (>=2)
Depends	R (>= 3.4.1), methods, GenomicRanges, Rsamtools(>= 1.20.4), ggplot2, plyr, openxlsx
Imports	grDevices, stats, utils, S4Vectors, IRanges, BiocGenerics, reshape2, GenomeInfoDb, BiocParallel, Biostrings, cowplot, graphics, GenomicAlignments, Hmisc
LinkingTo
Suggests	BiocManager, RUnit
SystemRequirements
Enhances
URL	http://www.bdmg.com.ar
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	TarSeqQC_1.12.0.tar.gz
Windows Binary	TarSeqQC_1.12.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan)	TarSeqQC_1.12.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/TarSeqQC
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/TarSeqQC
Package Short Url	http://bioconductor.org/packages/TarSeqQC/
Package Downloads Report	Download Stats