Data @ uw brian.yandell@wisc.edu team research aims learning objectives technology & tools wide data.

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Presentation transcript:

data @ uw brian.yandell@wisc.edu team research aims learning objectives technology & tools wide data

team research aims mouse genome scan zoom in sample workflow compare allele scan DNA contrast extract features human

tools workflow domain community developer community web / app view python/flask web framework CL access GNapi connects tools GN runs tools R/intermediate ONL Beacon cores Guix manages packages R/qtl2 JAX cluster cores UW CHTC cores julia/Sen UW data UT data JAX data

qtl2 tasks develop GNapi (Prins, Broman, Sen) data extraction tools created data upload, workflow tools needed redesign qtl2 packages to use GNapi (Broman, Yandell) data extraction, upload, etc. CC and DO mouse SQL information doqtl2 pipeline develop auxiliary qtl2 packages (Broman, Yandell) qtl2ggplot, qtl2shiny, qtl2feature qtl2d3plot rethink qtl2 data architecture (Broman, Yandell, Sen) small master data object data source indirection rethink genotype probability object?

learning objectives training next generation of young scientists scalable integrative models disease risk and treatment develop digital learning modules blended / flipped learning environments data & software carpentry gateway to intermediate to advanced skills reproducible research in teams