The second version of the Kraken taxonomic sequence classification system

RAxML Next Generation: faster, easier-to-use and more flexible

Transcript assembly and quantification for RNA-Seq

Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species in DNA sequences from a metagenomics sample.

Efficient phylogenomic software by maximum likelihood

MetaMDBG: a lightweight assembler for long and accurate metagenomics reads.

Ultrafast Sample Placement on Existing Trees

Massively parallel phylogenetic placement of genetic sequences

A library for working with phylogenetic and population genetic data.