Ribovore is a suite of tools for detecting, classifying and analyzing small subunit ribosomal RNA (SSU rRNA) and large subunit (LSU) rRNA sequences. It is used by GenBank to validate incoming 16S SSU rRNA sequences and to generate high quality datasets of SSU and LSU rRNA sequences for RefSeq and for use as blastn databases. Ribovore is written in Perl.

The ribotyper program is used to quickly validate and classify rRNA sequences using profile models of SSU and LSU rRNA genes from different taxonomic groups.

The ribosensor script also validates and classifies rRNA sequences, but uses blastn to do single-sequence comparisons in addition to using profiles.

The riboaligner script is used to check if rRNA sequences are full length and do not extend past the gene boundary.

The ribodbmaker script performs a series of tests on input rRNA sequences to create a high quality dataset of sequences that pass all tests.

• Ribovore installation instructions
• ribotyper example usage, command-line options and unexpected feature information
• ribosensor example usage, command-line options and pass/fail criteria
• riboaligner example usage, command-line options and length classes
• ribodbmaker example usage and command-line options
• Ribovore model information

• The recommended citation for using ribovore is: Alejandro A. Schaffer, Richard McVeigh, Barbara Robbertse, Conrad L. Schoch, Anjanette Johnston, Beverly Underwood, Ilene Karsch-Mizrachi, Eric P. Nawrocki; Ribovore: ribosomal RNA sequence analysis for GenBank submissions and database curation; in preparation (to be uploaded to bioRxiv in Feb 2021);