ml-tree-level4
CommunityAdvanced ML phylogenetics with model selection.
Authorroeimed0
Version1.0.0
Installs0
System Documentation
What problem does it solve?
This Skill automates advanced maximum-likelihood phylogenetic inference with automatic model selection, flexible tree-search strategies, and performance optimizations to produce high-quality evolutionary trees from sequence alignments.
Core Features & Use Cases
- Automatic model selection using AIC/BIC to balance fit and complexity.
- Tree search algorithms: NNI, SPR, and TBR for robust topology exploration.
- Advanced rate models: FreeRate, partition models, and branch-specific rates.
- Performance optimizations: Numba JIT compilation and optional GPU acceleration.
- Use Case: Generate publication-ready phylogenies from DNA, RNA, or protein alignments with bootstrap support and detailed model reporting.
Quick Start
Use the ml-tree-level4 skill to infer a tree from an aligned dataset with automatic model selection and multiple search strategies. Example: run_ml_tree --input data/sequences.fasta --tree-search nni --model auto --bootstrap 100
Dependency Matrix
Required Modules
None requiredComponents
Standard package💻 Claude Code Installation
Recommended: Let Claude install automatically. Simply copy and paste the text below to Claude Code.
Please help me install this Skill: Name: ml-tree-level4 Download link: https://github.com/roeimed0/rrna-phylo/archive/main.zip#ml-tree-level4 Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
Agent Skills Search Helper
Install a tiny helper to your Agent, search and equip skill from 223,000+ vetted skills library on demand.