TarSeqQC

This package is for version 3.11 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: 3.11

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 "4.0") 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 1.18.0
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
See More
Suggests BiocManager, RUnit
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package TarSeqQC_1.18.0.tar.gz
Windows Binary
macOS 10.13 (High Sierra) TarSeqQC_1.18.0.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 3.11 Source Archive