Mitag4taxa: Extracting SSU rRNA Illumina reads from metagenomes for taxonomic classification (opens in new tab)

The prevailing taxonomic profiling methods for an environmental sample rely heavily on PCR amplification of SSU ribosomal RNA (rRNA) genes and genome-based reference databases. Identification and extraction of Illumina metagenomics sequencing data are PCR independent but technically challenging in recognition of the SSU rRNA fragments. Here we present Mitag4taxa, a computational pipeline designed for taxonomic profiling of microbial communities from metagenomic Illumina sequencing reads conta...