Description

PSIPRED generates secondary structure predictions using up to four feed-forward neural networks and output from PSI-BLAST.

How to Use

There are multiple versions of PSIPRED available. An easy way of selecting the version is to use modules. To see the modules available, type

module avail psipred

To select a module, type

module load psipred/[ver]

where [ver] is the version of choice. This will set your $PATH variable, as well as $PSIPRED_DATA

A FASTA formatted sequence file is required.

psipred [id].fasta
psipass2 $PSIPRED_DATA/weights_p2.dat 1 1 1 [id].ss2 [id].ss > [id].horiz

Documentation

• PSIPRED server