The Conesa lab is interesting in the study of isoform function using third generation sequencing technologies. The proposed project aims at the creation of an isoform functional annotation pipeline using Snakemake. This requires the combination of a significant number of already existing independent scripts to create a pipeline that works for multiple species. Parametrisation and generalisation of these scripts is part of the project. The pipeline is written in Python and should run under the Hipergator environment.
Additional requirements: Knowledge in bioinformatics, public molecular databases and Hipergator.