Straightforward & minimalistic removal of poorly aligned regions in sequence alignments.
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Updated
Mar 18, 2019 - Python
Straightforward & minimalistic removal of poorly aligned regions in sequence alignments.
Identification of gene paralogs in genomes, and calculation of dS and dN/dS values for paralogous gene pairs
A codeml (PAML package) wrapper to make life easier. Dummy input unaligned multi-species fasta file (a single gene), and output codeml result.
It is a powerful tool for aligning nucleotide sequences based on protein alignments, translating nucleotide sequences to protein, and generating phylogenetic trees using Biopython.
A python script that takes alignment file and builds a phylogeny tree.
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