We developed pgMAP, an analysis pipeline to map gRNA sequencing reads from dual-targeting CRISPR screens. pgMAP output includes a dual gRNA read counts table and quality control metrics including the proportion of correctly-paired reads and CRISPR library sequencing coverage across all time points and samples. pgMAP is implemented using Snakemake and is available open-source under the MIT license at https://github.com/fredhutch/pgmap_pipeline.
@article{arxiv.2306.00944,
title = {pgMAP: a pipeline to enable guide RNA read mapping from dual-targeting CRISPR screens},
author = {Phoebe C. R. Parrish and Daniel J. Groso and James D. Thomas and Robert K. Bradley and Alice H. Berger},
journal= {arXiv preprint arXiv:2306.00944},
year = {2023}
}
Comments
6 pages, 1 figure, code available at https://github.com/fredhutch/pgmap_pipeline