riboPicker

Description

ribopicker website

riboPicker is a bioinformatics tool to identify and remove rRNA sequences from metagenomic and metatranscriptomic datasets. The rRNA-like sequences are classified by domain, subunit, and bacterial phyla. Coverage plots for the top hits are provided as well. You can download sequences separated by type, data to generate coverage plots, and a summary report. If you are using SILVA databases please cite: Pruesse, E., C. Quast, K. Knittel, B. Fuchs, W. Ludwig, J. Peplies, and F. O. Glockner. SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB. Nuc. Acids Res. 2007; Vol. 35, No. 21, p. 7188-7196

Environment Modules

Run module spider ribopicker to find out what environment modules are available for this application.

Environment Variables

• HPC_RIBOPICKER_DIR - installation directory
• HPC_RIBOPICKER_BIN - executable directory

Categories

biology, sequencing