As genomic data moves from the realm of basic research to being useful in translational applications, analysis tools to expedite efficient extraction of epidemiologically relevant information become valuable. The exploration and application of new genomic or transcriptomic data types to the malaria realm, such as linked ‘read cloud’ data, usually requires new analysis approachesto contend with the skewed nucleotide composition in parasite genomes, or high heterozygosity and repetitiveness in mosquito genomes. Tools developed by the group include:
COIL: A tool for estimating the Complexity of Infection of clinical malaria blood samples using Likelihood.
hmmIBD: A tool for determining whether haploid parasite genomes exhibit evidence of recent common ancestry, and for inferring when haplotypes have introgressed into one population from another.