zol: prepTG Databases for Other Bacterial Taxa

Each of the tar.gz compressed directories corresponds to prepTG databases (for the zol suite) featuring distinct, representative genomes for one of the ten well studied taxa/genera. Representative genomes for each genus/taxon were selected using skDER (https://zenodo.org/deposit/8273156). The compressed folders also contain an extra file, corresponding to a species tree of the representative genomes constructed using GToTree. Note, GToTree was modified to always use -super5 mode for SCG alignments for computational efficiency, but otherwise run with default parameters. Also, note, because genomes can be dropped by GToTree prior to phylogeny inference (e.g. if they lack enough SCGs), not all genomes in the database might be represented in the phylogenies. The phylum level SCGs from GToTree corresponding to each taxon were used (e.g. Actinobacteria SCGs were used for Cutibacterium).