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.
Original language | English |
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Journal | Bioinformatics (Online) |
Volume | 39 |
Issue number | 2 |
Number of pages | 3 |
ISSN | 1367-4811 |
DOIs | |
Publication status | Published - 2023 |
Bibliographical note
© The Author(s) 2023. Published by Oxford University Press.Keywords
- Software
- DNA, Ancient
- Genome
- Workflow