bio-comparative-genomics-hgt-detection

bio-comparative-genomics-hgt-detection is a Bioinformatics & life sciences skill for AI agents, published by BioTender-max in the awesome-bio-agent-skills repository on GitHub. Skillspace rates bio-comparative-genomics-hgt-detection F (45/100) and the safety scan rated it risky; the rating is based on static analysis only.

Detect horizontal gene transfer (HGT / LGT) using compositional methods (GC%, codon usage, tetranucleotide z-scores via SIGI-HMM, AlienHunter, IslandViewer 4, IslandPath-DIMOB), phylogenetic-incongruence methods (AvP, HGTphyloDetect, ALE / GeneRax / AleRax reconciliation, RANGER-DTL), and BLAST-distribution methods (HGTector v2, DarkHorse, Alien Index). Use when screening prokaryote genomes for genomic islands and HGT events, distinguishing HGT from incomplete lineage sorting / differential gene loss / hybridization, mapping donor lineages via phylogenetic placement, separating eukaryotic HGT from contamination, ruling out gBGC as a false signal, or quantifying DTL rates with ALE/GeneRax on bacterial trees.

Grade
F
Quality
45 / 100
Safety
Risky
GitHub stars
115

Unproven: rated by static analysis only, not yet compared head-to-head.

This rating describes the version of the repository we crawled; it may have changed since.

View source on GitHubBioTender-max/awesome-bio-agent-skills

Our review

Architecture
97 / 100
Maturity
Structured: ships references or scripts
Security scan
High-risk patterns
License
Not declared. Check the repository before reusing it.
Adoption
Adopted by 0 other repositories, in 2 collections

What the scanner flagged

  • executes shell/subprocess

Not checked yet

  • Not judged on the rubric yet (not a contender in its category)
  • No blind task eval yet
  • Scope (portable / vendor / repo-internal) not assessed; only the top of each category is read for scope
  • Sibling files (scripts, references) not fetched; security scan covers SKILL.md only

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