d-j-e/SNPPar
Parallel/Homoplasic SNP Finder
This tool helps evolutionary biologists and microbiologists identify specific patterns of genetic change (SNPs) within a collection of microbial genomes. It takes your SNP data (from a table or FASTA file), a phylogenetic tree, and a GenBank reference, then flags SNPs that show parallel, convergent, or revertant evolution. This helps researchers understand how different strains or isolates adapt similarly or evolve back to an ancestral state.
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Use this if you need to find instances where the same genetic changes (SNPs) have occurred independently in different lineages or reverted to an ancestral state in your microbial genomic data.
Not ideal if your phylogenetic tree is not bifurcating or rooted, or if you are working with non-microbial genomic data.
Stars
21
Forks
6
Language
Python
License
GPL-3.0
Category
Last pushed
May 03, 2023
Commits (30d)
0
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