bio-comparative-genomics-gene-family-evolution

bio-comparative-genomics-gene-family-evolution 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-gene-family-evolution C (79/100) and it passed the safety scan; the rating is based on static analysis only.

Model gene-family birth-death dynamics across a species tree using CAFE5 (Mendes et al 2020 Bioinformatics 36:5516 gamma-distributed rate categories), CAFE5-error (annotation-error-aware), Count (Csurös 2010 ancestral state reconstruction), BadiRate (Librado 2012 likelihood + parsimony), DupliPHY-Family, and ALE/AleRax (for per-family DTL; see [[gene-tree-species-tree-reconciliation]]). Test lineage-specific gene-family expansions and contractions, distinguish biological dynamics from annotation artifacts, account for assembly fragmentation, identify functional enrichment in expanded / contracted families. Use when correlating gene-family changes with phenotype evolution, ranking lineages by adaptive gene-family-rate shifts, post-WGD dosage-balance analysis, or building Birth-death models from OrthoFinder presence/absence matrices.

Grade
C
Quality
79 / 100
Safety
Passed
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, so go by its current files.

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

Our review

Architecture
97 / 100
Maturity
Structured: ships references or scripts
Security scan
No issues found
License
Not declared. Check the repository before reusing it.
Adoption
Adopted by 0 other repositories, in 2 collections

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

More Bioinformatics & life sciences skills

Skillspace indexes and rates this skill; it does not host or endorse it. Run third-party skills at your own risk.