codeml

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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

duplicates codeml paml paralogs gene-paralogs

A codeml (PAML package) wrapper to make life easier. Dummy input unaligned multi-species fasta file (a single gene), and output codeml result.

selection ecology molecular-evolution codeml natural-selection paml

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