TarSeqQC

This package is for version 3.14 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see TarSeqQC.

TARgeted SEQuencing Experiment Quality Control


Bioconductor version: 3.14

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>

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

Installation

To install this package, start R (version "4.1") and enter:


if (!require("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")
TarSeqQC: Targeted Sequencing Experiment Quality Control PDF R Script
Reference Manual PDF
NEWS Text

Details

biocViews Alignment, Coverage, DataImport, QualityControl, Sequencing, Software, TargetedResequencing, Visualization
Version 1.24.0
In Bioconductor since BioC 3.2 (R-3.2) (8.5 years)
License GPL (>=2)
Depends R (>= 3.5.1), methods, GenomicRanges, Rsamtools(>= 1.9.2), ggplot2, plyr, openxlsx
Imports grDevices, stats, utils, S4Vectors, IRanges, BiocGenerics, reshape2, GenomeInfoDb, BiocParallel, Biostrings, cowplot, graphics, GenomicAlignments, Hmisc
System Requirements
URL http://www.bdmg.com.ar
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Suggests BiocManager, RUnit
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Package Archives

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

Source Package TarSeqQC_1.24.0.tar.gz
Windows Binary TarSeqQC_1.24.0.zip
macOS 10.13 (High Sierra) TarSeqQC_1.24.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/TarSeqQC
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/TarSeqQC
Bioc Package Browser https://code.bioconductor.org/browse/TarSeqQC/
Package Short Url https://bioconductor.org/packages/TarSeqQC/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.14 Source Archive