TEQC: an R package for quality control in target capture experiments

Open Access

12 March 2011

journal article
research article
Published by Oxford University Press (OUP) in Bioinformatics

Vol. 27 (9), 1316-1317
https://doi.org/10.1093/bioinformatics/btr122

Abstract

Summary:TEQC is an R/Bioconductor package for quality assessment of target enrichment experiments. Quality measures comprise specificity and sensitivity of the capture, enrichment, per-target read coverage and its relation to hybridization probe characteristics, coverage uniformity and reproducibility, and read duplicate analysis. Several diagnostic plots allow visual inspection of the data quality. Availability and implementation:TEQC is implemented in the R language (version >2.12.0) and is available as a Bioconductor package for Linux, Windows and MacOS from www.bioconductor.org. Contact:manuela.hummel@crg.es

Keywords

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