# MYCOTOOLS 
Mycotools facilitates automating large-scale comparative genomics through a
standardized back-end database and software platform for acquiring, interfacing, and analyzing
genome data.

Mycotools is taxonomy-agnostic, seeking to unify file formatting standards
between kingdoms, and integrated with automated acquisition of
animal, plant, fungal, and prokaryote genomes.

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## Mycotools database
Mycotools automatically generates/updates a local database of
publicly available annotated genomes, and/or includes locally generated
genome data. Genome data is curated into a systematic `gff3` standard, and stored in a central database with taxonomic and
source metadata. The central database comprises a parsable, primary tab-delimited Mycotools database
(MTDB) metadata file. This enables swift data acquisition, and a singular, scalable file input for
analysis.

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## Mycotools software
The Mycotools software suite includes software for interfacing with the
Mycotools database and modules that serve as building blocks for
conducting and automating/pipelining comparative genomic analysis.

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## Citing

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

<img align="right" src="https://github.com/xonq/mycotools/blob/master/misc/ablogo.png">

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