Research Object Crate for polya_liftover

# polya_liftover - sc/snRNAseq Snakemake Workflow A [Snakemake][sm] workflow for using PolyA_DB and UCSC Liftover with Cellranger. Some genes are not accurately annotated in the reference genome. Here, we use information provide by the [PolyA_DB v3.2][polya] to update the coordinates, then the [USCS Liftover][liftover] tool to update to a more recent genome. Next, we use [Cellranger][cr] to create the reference and count matrix. Finally, by taking advantage of the integrated [Conda][conda] and [Singularity][sing] support, we can run the whole thing in an isolated environment. Please see our [README][readme] for the full details! [sm]: https://snakemake.readthedocs.io/en/stable/index.html "Snakemake" [polya]: https://exon.apps.wistar.org/polya_db/v3/index.php "PolyA_DB" [liftover]: https://genome.ucsc.edu/cgi-bin/hgLiftOver "Liftover" [cr]: https://github.com/alexdobin/STAR "Cellranger" [conda]: https://docs.conda.io/en/latest/ "Conda" [sing]: https://sylabs.io/singularity/ "Singularity" [readme]: https://github.com/IMS-Bio2Core-Facility/polya_liftover/blob/main/README.md

Author

Ryan Patterson-Cross

License

MIT

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