ASTRAL — fast species tree estimation from unrooted gene trees under the multi-species coalescent model. Handles incomplete lineage sorting (ILS) in phylogenomic datasets with hundreds of species and
Use with AI
Install the MCP server or CLI to instantly fetch ASTRAL documentation:
Install command
claude mcp add biocontext7 -- npx @biocontext7/mcpOr share this page: biocontext7.com/tools/astral
BEAST2 — Bayesian Evolutionary Analysis by Sampling Trees. Cross-platform Java application for Bayesian phylogenetic inference using MCMC sampling. Use when estimating time-calibrated phylogenies, rel
3 shared topics • 2 shared operations
Ensembl Compara — comparative genomics database and API from EMBL-EBI providing pairwise and multiple whole-genome alignments, gene trees, protein families, orthologues, paralogues, and synteny region
3 shared topics • 2 shared operations
OrthoFinder — fast, accurate ortholog inference for comparative genomics. Identifies orthogroups, orthologs, gene trees, rooted species trees, and gene duplication events from protein or nucleotide se
3 shared topics • 2 shared operations
TreeTime — maximum likelihood molecular clock inference, ancestral sequence reconstruction, and phylodynamic analysis from time-stamped phylogenies. Infers timetrees by iteratively optimizing ancestra
3 shared topics • 2 shared operations
IQ-TREE ModelFinder routing skill for maximum-likelihood phylogenetic model selection, partition merging, and reproducible tree inference from aligned DNA, amino-acid, codon, binary, morphological, an
3 shared topics • 1 shared operation