4 ms·
I agree the API is at this point is rather limited and it is difficult to use it in a way that would conveniently or efficiently replace any part of a genomic p
by i000 11y ago
I agree the API is at this point is rather limited and it is difficult to use it in a way that would conveniently or efficiently replace any part of a genomic pipeline.
But I think google is onto something. If they manage to deconstruct BAM files and store them in "format-free" way that will allow search, aggregation, and computation/reasoning across hundreds of thousands of patients/samples it may accommodate the next big wave of personal genomics data.
- davidglazer 11y agoI strongly agree with the idea of deconstructing legacy files (BAM, VCF, etc.) and moving to an API-centric (vs. file-format-centric) world. The Global Alliance for Genomics and Health (GA4GH.org) is working on that, with good early success -- for example, IGV (genome browser) can now work with either files or standard APIs, as can Picard (one of the popular suites of genome analysis tools). See https://www.youtube.com/watch?v=d8EvXtz2uiA https://www.youtube.com/watch?v=d8EvXtz2uiA for details on the Picard support. Disclaimer: I work on Google Genomics, and on the GA4GH APIs.