We’ve long known that the core numerical algorithm in dadi is in principle amenable to acceleration through GPU computing. We have now implemented GPU computing in dadi, and the results are spectacular. We see speed ups of over 100x comparing GPUs and CPUs on the same systems. And enabling this speed requires only a single… Read More »
Postdoc Paul Blischak just submitted our latest paper with Mike Barker. Paul developed an approach based on convolutional neural networks to infer models of hybrid speciation from phylogenomic data. His approach is among the first to use linkage information along the genome for such inference, and simulations show that it is powerful. Nicely, the CNN… Read More »
We welcome a new PhD student to the group. Linh Tran has a B.A. in Chemistry, but she’s now interested in biology and data science. In the Gutenkunst group, her PhD research will likely focus on applying machine learning approaches to genomic data to infer demographic history and natural selection.
Today was spectacular for past and present members of the group! First, former PhD student Aaron Ragsdale accepted a position as Assistant Professor in Integrative Biology at the University of Wisconsin – Madison. He’ll be starting in Fall 2021, after spending time at UGA-Langebio. Second, former PhD student Benson Hsieh was awarded an NIH K99… Read More »
Cells within a tumor are genetically diverse, and low-frequency mutations can have important implications for understanding treatment resistance and tumor evolution. But detecting such mutations is difficult. We developed BATCAVE as an improved algorithm for detecting mutations within tumors by modeling a key aspect of tumor biology. Namely, each individual tumor has its own profile… Read More »