Open Source Software

This page aims to acknowledge the open source software projects that have been contributed to this resource.

Our own open source software is being developed as @UCLOrengoGroup on GitHub.

• cath-tools – Protein structure comparison tools

• Perl – The Perl Programming Language
• Catalyst – MVC web application framework
• Moose – Object system for Perl 5
• DBIx::Class – Object relational mapper
• BioPerl – Perl tools for bioinformatics, genomics and life science

• Varnish Cache – Web application accelerator
• Apache HTTP – HTTP server
• Apache Solr – Enterprise Search Platform

• MSAViewer – Multiple Sequence Alignment Viewer (thanks @wilzbach) ¹⁾
• 3Dmol.js – A modern, object-oriented JavaScript library for visualizing molecular data ²⁾
• D3 – Data-Driven Documents
• BioJS – Modern data visualizations for the web

• BLAST – Basic Local Alignment Search Tool
• HMMER3 – Biosequence analysis using profile Hidden Markov Models
• MAFFT – Multiple alignment program
• Scorecons – Scores residue conservation in a multiple sequence alignment