Bioconductor toolchain for reproducible bioinformatics pipelines using Rcwl and RcwlPipelines.

ABSTRACT: The Common Workflow Language (CWL) is used to provide portable and reproducible data analysis workflows across different tools and computing environments. We have developed Rcwl, an R interface to CWL, to provide easier development, use, and maintenance of CWL pipelines from within R. We have also collected more than 100 pre-built tools and pipelines in RcwlPipelines, ready to be queried and used by researchers in their own analysis. A single-cell RNA sequencing preprocessing pipeline demonstrates use of the software. Project website: https://rcwl.org (Rcwl: https://bioconductor.org/packages/Rcwl; RcwlPipelines: https://bioconductor.org/packages/RcwlPipelines). Supplementary data are available at Bioinformatics online.

SUBMITTER: Hu Q 

PROVIDER: S-EPMC8504628 | biostudies-literature | 2021 Mar

REPOSITORIES: biostudies-literature