Pathogen informatics and modelling
graph-gene Caller (ggCaller), combines gene annotation and pangenome clustering steps within population-wide de Bruijn Graphs.
Split k-mer analysis (SKA) can be used to produce alignments from closely related sequence assemblies or reads, quickly (because it is alignment-free) and with minimal fuss (due to the interface).
Calculate core and accessory distances, cluster genomes, assign new genomes to clusters, make visualisations
A rust rewrite of pp-sketchlib particularly targeted at very large datasets by using a new file format. To find nearest neighbours or perform subset queries, this code is an improvement over pp-sketchlib.
Making Execution of (Nearly) Every Life-science Model ACcessible to All Researchers
Interactive visualisations of mathematical models from BioModels.