Bio::Das::ProServer::SourceAdaptor::sif
$LastChangedRevision: 688 $
Interactions involving 001: <host>/das/<source>/interaction?interactor=001 Interactions between 001 and 002 <host>/das/<source>/interaction?interactor=001;interactor=002
Serves up interaction DAS responses from 'Simple Interaction Format' (SIF) files. See http://www.cytoscape.org/cgi-bin/moin.cgi/Cytoscape_User_Manual/Network_Formats http://www.cytoscape.org/cgi-bin/moin.cgi/Cytoscape_User_Manual/Network_Formats for details of the file format.
[mysif] adaptor = sif state = on transport = sif ; the main SIF file: filename = /data/interactions.sif ; zero or more attribute files: attributes = /data/node-attribute.noa ; /data/edge-attributes.eda ; coordinates will be used as 'dbCoordSys': coordinates = MyCoordSys -> 001 ; static parameters: interaction.dbSource = MyInteractionDB interaction.dbSourceCvId = MIDB interaction.dbVersion = 12 interactor.dbSource = MyProteinDB interactor.dbSourceCvId = MPDB interactor.dbVersion = 23
Run ProServer with the -debug flag.
See documentation in superclass.
This adaptor supports the 'interaction' command only.
The Simple Interaction Format is very simple, and therefore only supports a limited range of DAS annotation details. It also only handles binary interactions (i.e. those with exactly two interactors).
None reported.
Andy Jenkinson <andy.jenkinson@ebi.ac.uk>
Copyright (c) 2008 EMBL-EBI
To install Bio::Das::ProServer, copy and paste the appropriate command in to your terminal.
cpanm
cpanm Bio::Das::ProServer
CPAN shell
perl -MCPAN -e shell install Bio::Das::ProServer
For more information on module installation, please visit the detailed CPAN module installation guide.