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Kurt-Hetrick / CIDR_WES

CIDR's production pipeline for WES and other targeted DNA sequencing projects.
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verifybamid2 #30

Open Kurt-Hetrick opened 6 years ago

Kurt-Hetrick commented 6 years ago

create a vm dev environment on my laptop (hyper-v if I'm allowed, virtualbox if i'm not). compile this (won't be able to do it on cidr servers). create a singularity image.

Kurt-Hetrick commented 6 years ago

so I was able to pull an image for version 1.4 from docker hub with singularity so I can look into implementing this later. in addition to on the fly pca results, i think that this can work on cram files so that is one more report that i can detach from bam files in the pipeline.

Kurt-Hetrick commented 5 years ago

workflow fundamentally different. things to investigate.

  1. which resource set to use. 1kg, 1kgphase3, hgdp
  2. 10 or 100k...or do you subset 100k with target or superbait file.