This is a list of software I had developed or contributed towards in the last few years. Most of the code is available on Github under an open source license.
Role: Contributor, Author: Enrique Gonzalez-Tortuero
Role: Developer (under the guidance of Audrey Michel and Pasha Baranov at the LAPTI).
Related publication: RiboGalaxy: a browser based platform for the alignment, analysis and visualization of ribosome profiling data https://www.ncbi.nlm.nih.gov/pubmed/26821742. PubMed, NCBI.
gwips_tools is a collection of Python scripts for automated download of genome annotations and reference sequences from UCSC.
Galaxy BugFix: Missing files with history export
Related publication Transforming microbial genotyping: a robotic pipeline for genotyping bacterial strains. PubMed, NCBI.
An online manuscript preparation system for Researchers (discontinued).
Teamwork - import tasks from Excel
Implemented the functionality of importing tasks and task lists from Microsoft Excel files on Teamwork.
biograph- a software written in PHP for simple Lineweaver-Burke plots.
Bioinformatist.org - Wiki project with step by step instructions for installing Bioinformatics software. First prize winner, the 2007 BioWiki contest.
VLinux - Live Linux CD with Bioinformatics software pre-installed.
Built RPM packages of some Bioinformatics software. These are now integrated into the openSUSE science project.