MLTreeMap - Accurate Maximum Likelihood Placement Of Environmental DNA Sequences Into Taxonomic And Functional Reference Phylogenies
Shotgun sequencing of environmental DNA is an essential technique for characterizing uncultivated microbes
Existing algorithms are largely optimized for speed and coverage; in contrast, we present here a software framework that focuses on a restricted set of informative gene families, using Maximum Likelihood to assign these with the best possible accuracy. This framework ('MLTreeMap';
We discuss how we validated our pipeline using complete genomes as well as simulated and actual environmental sequences.