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Sustainable data analysis with Snakemake
Felix Mölder, Kim Philipp Jablonski, Brice Letcher et al., 2021. F1000Research.
Describes Snakemake, a workflow system for writing data analyses as rule-based pipelines, and argues that analyses should be adaptable and transparent as well as reproducible.
What it's used for here
The inquiry-framework report weighs it against make and chooses make for the project, keeping Snakemake in reserve if dependencies grow.
Cited by on this site 1 record
1 methods surveys
SRCFrameworks of inquiry
Cite it
Mölder, F., Jablonski, K. P., Letcher, B., Hall, M. B., Tomkins-Tinch, C. H., Sochat, V., Forster, J., Lee, S., Twardziok, S. O., Kanitz, A., Wilm, A., Holtgrewe, M., Rahmann, S., Nahnsen, S., & Köster, J. (2021). Sustainable data analysis with Snakemake. F1000Research. https://doi.org/10.12688/f1000research.29032.1
@article{molder2021sustainable,
author = {Mölder, Felix and Jablonski, Kim Philipp and Letcher, Brice and Hall, Michael B. and Tomkins-Tinch, Christopher H. and Sochat, Vanessa and Forster, Jan and Lee, Soohyun and Twardziok, Sven O. and Kanitz, Alexander and Wilm, Andreas and Holtgrewe, Manuel and Rahmann, Sven and Nahnsen, Sven and Köster, Johannes},
title = {Sustainable data analysis with Snakemake},
journal = {F1000Research},
year = {2021},
doi = {10.12688/f1000research.29032.1},
url = {https://f1000research.com/articles/10-33/v2}
}TY - JOUR TI - Sustainable data analysis with Snakemake AU - Mölder, Felix AU - Jablonski, Kim Philipp AU - Letcher, Brice AU - Hall, Michael B. AU - Tomkins-Tinch, Christopher H. AU - Sochat, Vanessa AU - Forster, Jan AU - Lee, Soohyun AU - Twardziok, Sven O. AU - Kanitz, Alexander AU - Wilm, Andreas AU - Holtgrewe, Manuel AU - Rahmann, Sven AU - Nahnsen, Sven AU - Köster, Johannes PY - 2021 JO - F1000Research DO - 10.12688/f1000research.29032.1 UR - https://f1000research.com/articles/10-33/v2 ER -
Mölder, Felix et al.. “Sustainable data analysis with Snakemake.” F1000Research (2021). https://doi.org/10.12688/f1000research.29032.1.