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- 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.
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cds mkdir BDIB_Human_tutorial cp -r $BI/ngs_course/human_variation BDIB_Human_tutorial/raw_files & # This command will take some amount of time to finish. Move onto the next task while you wait, and later when it has finished copying do the next command cd $SCRATCH/BDIB_Human_tutorial/rawfilesraw_files gunzip *.gz # this will unzip all the compressed files you have just copied |
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Go through the IGV tutorial paying special attention to how to load IGV on your local computer and the 2nd set of data covering human information.
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