bookmark PhymmBL A classification system designed for metagenomics experiments that assigns taxonomic labels to short DNA reads. PhymmBL combines two components: (i) composition-directed taxonomic predictions from Phymm and (ii) basic local alignment search tool (BLAST)-based homology results. PhymmBL combines these to label each input sequence with its best guess as to the taxonomy of the source organism. Input sequences as short as 100 base pairs can be phylogenetically classified with PhymmBL more accurately than with any other existing method. PhymmBL predicts species, genus, family, order, class and phylum for each read, allowing users to arrange results according to levels of specificity relevant to their research goals.