TEQC

Quality control for target capture experiments

Bioconductor version: Development (3.0)

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>

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("TEQC")

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

Documentation

PDF R Script TEQC
PDF   Reference Manual
Text   NEWS

Details

biocViews Genetics, Microarray, QualityControl, Sequencing, Software
Version 3.5.2
In Bioconductor since BioC 2.8 (R-2.13)
License GPL (>= 2)
Depends methods, BiocGenerics(>= 0.1.0), IRanges(>= 1.13.5), Rsamtools, hwriter
Imports Biobase(>= 2.15.1)
Suggests
System Requirements
URL
Depends On Me
Imports Me
Suggests Me

Package Downloads

Package Source TEQC_3.5.2.tar.gz
Windows Binary TEQC_3.5.2.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) TEQC_3.5.2.tgz
Mac OS X 10.9 (Mavericks) TEQC_3.5.2.tgz
Package Downloads Report Download Stats

Mailing Lists »

Post questions about Bioconductor packages to our mailing lists. Read the posting guide before posting!

Fred Hutchinson Cancer Research Center