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I actually found this to be a very timely paper, as the set-up of an RNA-seq workflow has been added to my to-do recently. One thing I am not keen on is the sys
by hirenj 11y ago
I actually found this to be a very timely paper, as the set-up of an RNA-seq workflow has been added to my to-do recently. One thing I am not keen on is the systems administration part of the work, and I like the idea of being able to spin up machines easily using docker.
I'm not sure about your comment about Big Data. If it turns out every hospital will have a next-gen sequencer, it seems to me the pipelines are really important, and having someone else working out the logistics sounds good to me. I'm curious as to what you consider the tougher big data problem. From where I sit, I consider this to be a complex data problem, and the issues of data size are simply solved by better/faster computing.
- yread 11y agoWe're currently trying out https://arvados.org https://arvados.org . It runs on Docker, you define pipeline with json and some python soup that calls API that takes care of provisioning worker nodes. I hope that future will look something like that. And that somebody else will pay the cloud bill....
- IanCal 11y agoThanks for this, it looks like it might tie up a few things I've been thinking about building myself (the tracking of inputs & outputs specifically).