Name: Steven Hofmeyr
Pronouns:
Biography:
Steven Hofmeyr is a computer scientist at Lawrence Berkeley National Laboratory. Previously he was founder and Chief Scientist at cyber-security company Sana Security, which was acquired by AVG in 2009. He received a Ph.D. in Computer Science from the University of New Mexico in 1999. His research interests include: bioinformatics, particularly metagenome assembly, information security, modeling of viral infections and immune responses within the lungs, modeling of complex systems, e.g. the Internet; operating systems, and parallel applications, including programming, scheduling and load balancing. He was named one of Infoworld’s top 12 Innovators of the Year in 2004, and received the MIT Technology Review TR100 Innovators of the Year award in 2003 for Advances in Network Security.
Institution/Lab: Lawrence Berkeley National Laboratory
Website: https://crd.lbl.gov/divisions/amcr/computer-science-amcr/class/members/class-staff/steven-hofmeyr/
SRP Collaboration Topic/Title: Extreme-scale metagenomics
Field or research area: HPC, bioinformatics
Please select all the topical areas that apply to your project:
Computational Science Applications (i.e., bioscience, cosmology, chemistry, environmental science, nanotechnology, climate, etc.); Computer Science (i.e., architectures, compilers/languages, networks, workflow/edge, experiment automation, containers, neuromorphic computing, programming models, operating systems, sustainable software); High-Performance Computing; Machine Learning and AI
Brief Abstract:
I am looking for students interested in working on metagenomics, especially large-scale metagenome assembly, and machine learning for metagenomics. Here at LBL we have consistently done the largest ever metagenome assemblies, and are working on improving our code base, as well as researching new algorithms and approaches, such as with AI/ML.
Desired relevant skills, background, or interests:
Familiarity with HPC systems, competence with C++ and python. Bioinformatics and AI/ML knowledge is a plus
Other comments:
Do any special requirements apply? Permanent Resident OK; International OK
Other, specify:
Keywords:
bioinformatics, HPC, parallel applications, metagenomics
Lightning Talk Title: Extreme-scale metagenomics