beautify docs; modernize tutorial to v2 CLI Simplify verbiage across the wiki and unify structure: sentence-case headings, horizontal rules in place of stacked <br /> separators, and raw.githubusercontent.com image URLs (blob/*.png does not reliably render as an image). Tutorial: translate every deprecated flat script to its v2 nested invocation per pyproject.toml (jgiDwnld -> mycotools download jgi, db2hgs -> mycotools cluster db, fa2tree -> mycotools phylo tree, db2search -> mycotools homology db, crap -> mycotools phylo crap, ome2name -> mycotools rename, db2files -> mtdb files, stats scripts -> mycotools stats). CRAP now writes phylo_crap_<date>, so correct the resume example and the Clinker loop. Reduce the migration warning to a short note. MycotoolsDB: order the column list as acquisition_date then published, matching MTDB.columns and the example header; repoint the broken #data-assimilation anchor to #data-acquisition; widen scope from NCBI fungal/prokaryotic to NCBI genomic data. Install: mtdb -d no longer exists; verify with mtdb -v instead. Home: add a contents list. Usage: show the invocation for the JGI/NCBI accession-file examples. Fix typos throughout. Co-Authored-By: Claude Opus 4.8 <noreply@anthropic.com>

xonq committed Jul 21, 2026

update cli

xonq committed Jul 21, 2026

additional new version information

xonq committed Jul 20, 2026

update image

xonq committed Jul 3, 2024

update pic

xonq committed Jul 3, 2024

ambiguous dates

xonq committed Jul 2, 2024

better name

xonq committed Jul 2, 2024