Comparative genomics automation and standardization software
Project description
NOTE
This software is a beta release - kindly raise an issue for errors.
PURPOSE
Bring broadscale comparative genomics to the masses.
Mycotools is a compilation of computational biology tools and database (MycotoolsDB/MTDB) software that facilitate large-scale comparative genomics. MycotoolsDB dereplicates and locally assimilates NCBI and MycoCosm (Joint Genome Institute) genomes into a database schema with uniform file curation, scalability, and automation as guiding principles.
- Database initialization:
mtdb u --init <DIR>
- Database updating:
mtdb u --update
- The MycotoolsDB (MTDB) uniformly curates GenBank/MycoCosm and local
gff
formats into a consistent standard - The
.mtdb
database format is a uniform input for analyses with 100,000s to as few as a single genome - Mycotools software suite includes modules to automate routine-complex comparative genomics, such as phylogenetic analysis
CITING
If Mycotools contribute to your analysis, please cite the preprint and mention the version in-line.
Konkel, Z., Slot, J. C. Mycotools: An Automated and Scalable Platform for Comparative Genomics. bioRxiv 2023.09.08.556886; doi: https://doi.org/10.1101/2023.09.08.556886
INSTALL
Please review the wiki for installation and usage information!
Project details
Release history Release notifications | RSS feed
Download files
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.
Source Distribution
Built Distribution
Hashes for mycotools-0.31.36-py3-none-any.whl
Algorithm | Hash digest | |
---|---|---|
SHA256 | 2d7b984f2d4d60c866e988456a45501b63027f9f9db143f11f2239a80990c01e |
|
MD5 | 74568ff337e285aa5ae31dc660e872b1 |
|
BLAKE2b-256 | d6dc1d0f7aa65a6ece8fef84f8d4222b410db13ddb24e4b025dc8ff80b9e95a2 |