This isn't a tutorial as much as it is the first step to our tutorials for today. Hopefully the fact that we are starting this before we get into a presentation and emphasizing how long its going to take impresses upon you that these files really are much bigger and therefore more difficult/expensive to work with from a time perspective if nothing else.
Start File Copy
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Overview
Today we are going to hit the ground running to try to make up some ground that we lost yesterday.
Objectives
- Complete either the corrected Samtools Tutorial, or the abbreviated cook-book-version. (The cookbook version is worth looking at even if you complete the full tutorial as it teaches another way of executing the same commands)
- Go back to the IGV tutorial, look through the E. coli section with particular regard to loading IGV, but don't delay or look too in depth there.
- Focus more on the 2nd set of data: Humans.
- Copy the human data over to $SCRATCH before the presentation starts to make sure it is available after our break.
Start File Copy
Since the files will take a while to copy and this can be done in the background, its not a bad idea to start them first. REMEMBER that it is using up 1 of the processors so you are left with 11 to use as you see fit.
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idev -m 180 -q normal -A "UT-2015-05-18" cds cp -r $BI/ngs_course/human_variation BDIB_Human_tutorial & |
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