My Software Research

Hello and welcome to my academic website. Here you can find information about my research, publications, software development, and other news. I (hope to) regularly write posts on topics related to ecology, evolution and bioinformatics with the goal of documenting fun stories and useful Python and R code. I’m currently a post-doc in the Donoghue Lab at Yale University. Before starting here I […]

Software

pyRAD Software to assemble de novo RADseq loci from restriction-site associated sequence data (RAD,ddRAD,GBS,PEddRAD,PEGBS). Alignment clustering allows for indel variation to better align highly divergent samples, merge and trim methods canbe employed to rescue overlapping paired end data, and reverse complement clustering is available to improve GBS assemblies of short overlapping contigs. simrrls Software to simulate fastQ […]