1. Mapache: a flexible pipeline to map ancient DNA.
- Author
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Neuenschwander, Samuel, Dávalos, Diana I Cruz, Anchieri, Lucas, Mota, Bárbara Sousa da, Bozzi, Davide, Rubinacci, Simone, Delaneau, Olivier, Rasmussen, Simon, and Malaspinas, Anna-Sapfo
- Subjects
FOSSIL DNA ,PROTEIN-protein interactions ,WORKFLOW - Abstract
Summary We introduce mapache, a flexible, robust and scalable pipeline to map, quantify and impute ancient and present-day DNA in a reproducible way. Mapache is implemented in the workflow manager Snakemake and is optimized for low-space consumption, allowing to efficiently (re)map large datasets—such as reference panels and multiple extracts and libraries per sample — to one or several genomes. Mapache can easily be customized or combined with other Snakemake tools. Availability and implementation Mapache is freely available on GitHub (https://github.com/sneuensc/mapache). An extensive manual is provided at https://github.com/sneuensc/mapache/wiki. Supplementary information Supplementary data are available at Bioinformatics online. [ABSTRACT FROM AUTHOR]
- Published
- 2023
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