An open, customisable, virtual machine based on Ubuntu Linux for teaching and learning Bioinformatics.
An Android app that displays motivational quotes from Reddit r/GetMotivated. It is written in Dart and Flutter and uses the Reddit API to retrieve quotes in JSON.
Available on Google Play Store
Scientific software developed in research groups as part of a team
A Python program to plot and output Ribo-Seq read counts from BAM format alignment files. This program and the riboSeqR Galaxy wrapper were developed under the supervision of Dr. Audrey Michel and Dr. Pasha Baranov at LAPTI, UCC in 2015.
Galaxy wrapper for riboSeqR¶
Features implemented include preparation of riboSeqR input from SAM format alignment files, triplet periodicity, metagene analysis, plotting ribosome profiles and differential translation analysis using baySeq.
riboSeqR wrapper is available on GitHub.
BioNumerics 6 scripts and GUIs¶
These programs were written using Python 2 and PyQt 4 and were developed in collaboration with members in the Microbial Phylogeography group at Environmental Research Institute, UCC during 2007-2012 under the supervision of Prof. Mark Achtman.
IT Query is used for visualizing and managing data from ItemTracker LIMS system.
IT CRISPR is used for assembling and tracking the progress of CRISPR sequence experiments.
BioNumerics scripts can be obtained from GitLab.
Themes for Pelican and Sphinx¶
A theme for the Pelican static site generator based on the Ghost blogging engine’s Attila theme. This is a work in progress. A release will be made when theme is feature complete.
Solar theme for Sphinx¶
Theme for Sphinx documentation projects based on the Solarized color scheme (repository).
VLinux was a live Linux CD with Bioinformatics software pre-installed.
Note: Development has been discontinued. Please consider using BioVM instead.