Snakemake - a scalable bioinformatics workflow engine

By Johannes Köster, Sven Rahmann. Bioinform., 2012

1,290 citations recorded by the source corpus.

Subfields: Information Systems and Management, Molecular Biology, Spectroscopy

View Paper: https://www.semanticscholar.org/paper/f22e039275da9512fd59109165b99abf7c6910f9

Citations in the corpus

• A comparison of automatic cell identification methods for single-cell RNA sequencing data (2019, neutral): “…reproducibility and support the future extension of this benchmarking work with new classification methods and benchmarking datasets, a Snakemake [51] workflow for automating the performed benchmarking analyses was developed with an MIT license (https:// github.com/tabdelaal/scRNAseq_Benchmark/).”
• Sustainable data analysis with Snakemake (2021, neutral): “Third, with systems like Nextflow [29], Snakemake [18], BioQueue [33], Bpipe [26], ClusterFlow [11], Cylc [25], and BigDataScript [8], workflows are specified using a domain specific language (DSL).”