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, typemodule avail psipred
To select a module, typemodule 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