bio-remote-homology

Name: bio-remote-homology
Rating: 5 (1 reviews)
Author: bg-szy

Detect distant homologs using profile and structure-aware methods that go beyond standard BLAST. Use when sequence identity falls into the twilight zone (<35% pairwise), when BLAST fails to find homologs that should exist, when working at metagenomic scale (DIAMOND, MMseqs2), or when structure beats sequence (Foldseek). Covers PSI-BLAST (iterative PSSM), jackhmmer (iterative HMM), HHblits/HHsearch

1stars

Updated 13 days ago

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Version Compatibility

Reference examples tested with: NCBI BLAST+ 2.15+, HMMER 3.4+, MMseqs2 15+, DIAMOND 2.1+, HH-suite3 3.3+, Foldseek 9+

Before using code patterns, verify installed versions match. If versions differ:

CLI: <tool> --version then <tool> --help to confirm flags
Python: pip show <package> then introspect signatures

If a flag is unrecognized or behavior changes, introspect with --help and adapt the example to match the installed version rather than retrying.