alignment-gild
Bayesian Inference of Alignment and Phylogeny
Install
- All systems
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curl cmd.cat/alignment-gild.sh
- Debian
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apt-get install bali-phy - Ubuntu
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apt-get install bali-phy - Kali Linux
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apt-get install bali-phy - Windows (WSL2)
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sudo apt-get updatesudo apt-get install bali-phy - Dockerfile
- dockerfile.run/alignment-gild
bali-phy
Bayesian Inference of Alignment and Phylogeny
BAli-Phy estimates multiple sequence alignments and evolutionary trees from unaligned DNA, amino acid, or codon sequences. BAli-Phy uses MCMC to estimate evolutionary trees, positive selection, and branch lengths while averaging over alternative alignments. BAli-Phy can display alignment ambiguity graphically in an alignment uncertainty (AU) plot. BAli-Phy can also estimate phylogenies from a fixed alignment (like MrBayes and BEAST) using substitution models like GTR+gamma. BAli-Phy automatically estimates relative rates for each gene.