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Journal Article
Research Support, Non-U.S. Gov't
NGS-pipe: a flexible, easily extendable and highly configurable framework for NGS analysis.
Bioinformatics 2018 January 2
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.
Availability and implementation: https://github.com/cbg-ethz/NGS-pipe.
Contact: [email protected].
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.
Availability and implementation: https://github.com/cbg-ethz/NGS-pipe.
Contact: [email protected].
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