The Fastx toolkit (http://hannonlab.cshl.edu/fastx_toolkit) is installed on fourierseq and it is a set of commandline tools for processing of fasta/fastq data files. It can be useful for any preprocessing of data, such as filtering by quality, base trimming etc.
For more usage information, check the documentation http://hannonlab.cshl.edu/fastx_toolkit/commandline.html