NGS-pipe: A flexible, easily extendable and highly configurable framework for NGS analysis
Hofmann, Ariane L.
Toussaint, Nora C.
Ng, Charlotte K.Y.
Hall, Michael N.
Levesque, Mitchell P.
Manz, Markus G.
Stekhoven, Daniel J.
- Journal Article
Rights / licenseCreative Commons Attribution-NonCommercial 4.0 International
Motivation Next-generation sequencing is now an established method in genomics, and massive amounts of sequencing data are being generated on a regular basis. Analysis of the sequencing data is typically performed by lab-specific in-house solutions, but the agreement of results from different facilities is often small. General standards for quality control, reproducibility and documentation are missing. Results We developed NGS-pipe, a flexible, transparent and easy-to-use framework for the design of pipelines to analyze whole-exome, whole-genome and transcriptome sequencing data. NGS-pipe facilitates the harmonization of genomic data analysis by supporting quality control, documentation, reproducibility, parallelization and easy adaptation to other NGS experiments Show more
Journal / seriesBioinformatics
Pages / Article No.
PublisherOxford University Press
Organisational unit03790 - Beerenwinkel, Niko / Beerenwinkel, Niko
03630 - Krek, Wilhelm / Krek, Wilhelm
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