TEQC

DOI: 10.18129/B9.bioc.TEQC    

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

Quality control for target capture experiments

Bioconductor version: 3.8

Target capture experiments combine hybridization-based (in solution or on microarrays) capture and enrichment of genomic regions of interest (e.g. the exome) with high throughput sequencing of the captured DNA fragments. This package provides functionalities for assessing and visualizing the quality of the target enrichment process, like specificity and sensitivity of the capture, per-target read coverage and so on.

Author: M. Hummel, S. Bonnin, E. Lowy, G. Roma

Maintainer: Manuela Hummel <m.hummel at dkfz.de>

Installation

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

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

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("TEQC")

 

PDF	R Script	TEQC
PDF		Reference Manual
Text		NEWS

Details

biocViews	Genetics, Microarray, QualityControl, Sequencing, Software
Version	4.4.0
In Bioconductor since	BioC 2.8 (R-2.13) (8 years)
License	GPL (>= 2)
Depends	methods, BiocGenerics(>= 0.1.0), IRanges(>= 1.13.5), Rsamtools, hwriter
Imports	Biobase(>= 2.15.1)
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Build Report

Package Archives

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

Source Package	TEQC_4.4.0.tar.gz
Windows Binary	TEQC_4.4.0.zip
Mac OS X 10.11 (El Capitan)	TEQC_4.4.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/TEQC
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/TEQC
Package Short Url	http://bioconductor.org/packages/TEQC/
Package Downloads Report	Download Stats