Create BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWood/kraken).

This is a pipeline to obtain Metagenome-Assembled-Genomes (MAGs) from shotgun metagenomic sequencing data.

EasyCodeML: A visual tool for analysis of selection using CodeML

Scripts to download genomes from the NCBI FTP servers

Evolutionary couplings from protein and RNA sequence alignments