index_config.yml

# location for all generated files
basename: gtdb-r95

output_dir: gtdb-r95

genomes_csv: gtdb-r95/gtdb-r95-reps.lineages.genome-filenames.mod.csv
proteins_csv: gtdb-r95/gtdb-r95-reps.lineages.protein-filenames.mod.csv

protein_input: True
# directory in which genome/protein filenames live
data_dir: /group/ctbrowngrp/gtdb-r95

alphabet_info:
  nucleotide:
    ksizes: [21,31,51]
    scaled: [2000]
  protein:
    ksizes: [7,10]
    scaled: [200]
  dayhoff:
    ksizes: [16]
    scaled: [200]
  hp:
    ksizes: [42]
    scaled: [200]