# ribopicker

## Summary

+ **Module Name:** ribopicker
+ **Support Level:** Secondary Support
+ **Software Access Level:** Open Access
+ **Home Page:** [http://ribopicker.sourceforge.net/manual.html](http://ribopicker.sourceforge.net/manual.html)

## Software Description

The riboPicker tool can be used to automatically identify and
efficiently remove rRNA-like sequences from metatranscriptomic and
metagenomic datasets. At MSI, we provide a stand-alone version of the
tool.  So the user must have some linux background to use this tool. If
you are not familiar with the command line, the developer also provides
a web-version of the software at:
<http://edwards.sdsu.edu/cgi-bin/ribopicker/ribopicker.cgi> Please note,
for the web-version, your input file should be less than 2GB in size.
## General Linux

To run this software interactively in a Linux environment run the commands:

	module load ribopicker
	ribopicker -h

or

	ribopicker [options] -f <file> -dbs <list> ...

Since ribopicker will search ribosomal sequences in known databases, please use:

	ribopicker -show_dbs

to check for available databases at MSI.

	ribopicker -f input.fasta -dbs slr,ssr