CSHL documentation

The WormBase Cold Spring Harbor team is in charge of developing, maintaining, and hosting WormBase. This page contains links to documentation relating to those topics.

Much of this documentation will be obsolete shortly. Please see Developer documentation for up-to-date documents.

Development

• Javascript libraries - Javascript libraries in use at WormBase
  • Using collapsible sections - API for DHTML open/close sections
  • Balloon Tooltips - API and architecture for AJAX/DHTML-based tooltips
• Session management - API and architecture for CGI::Session-based state memory and user authentication
• RSS implementation - Documentation and caveats concerning the WormBase RSS implementation
• Converting GFF2 to GFF3 - Converting Wormbase GFF data from GFF2 to GFF3
  • GFF3 features (C. elegans) - GFF3 features included in the C. elegans GFF3 file
  • GFF3 features (C. briggsae) - GFF3 features included in the C. briggsae GFF3 file
• GFF3 validation - GFF3 Validator Code Base
• N-Browse installation & interaction data - Wormbase N-Browse installation and preparation of Wormbase interaction data
• Interaction display in the gene page - Interaction Display in the Gene Page
• BLAST/BLAT Page - BLAST/BLAT page and databases
• Importing protein structure data - Importing protein structure data from TargetDB and PDB
• Importing protein structure data images - Importing protein structure images for structure data
• Importing PFAM images - Importing protein structure images for PFAM domains on the gene page
• Geographic displays - Geographic map displays

Administration

Hardware

• WormBase Infrastructure
• Building and configuring the front end caching server

General Admin

• Updating WormBase

• Managing Perl libraries across nodes

• Optimizing site performance