How to use GRASSIUS
There are 3 screencasts available which describe various GRASSIUS pages and their capabilities.
| How to use ATV to view phylogenetic trees and what are the features of ATV? |  |
| Protein Information page in GrassTFDB |  |
| Promoter/cis-element information page for a curated promoter in GrassPROMDB (Click on image to watch the demonstration) |  |
Perl scripts or modules used in GRASSIUS
Perl Modules (all available at CPAN or bioperl.org)
- HTML::Mason module is used to embed Perl in
HTML and generate webpages
- BioPerl modules are used to handle, modify and parse sequence data. Latest version of Bioperl can
be obtained from bioperl.org
- Bio::Graphics
module, part of BioPerl module, is used to generate visual representations of protein domains, gene structures, cis-regulatory elements, etc.
Custom Perl scripts
- Script to identify redundant sequences within a multi-fasta file (uses Digest::MD5 module). Download
- Script to sort proteins into TF families based on PFAM output. Download
