07. Parallelization

popdel profile relies on asynchronous I/O for reducing the time needed for profile creation.

popdel call itself is not parallelized. If you want to run the calling on multiple CPU's or cluster nodes, you can easily and efficiently divide the calling into batches for the different chromosomes using the option -r and run/submit each job individually.

popdel call myProfiles.txt -r chr1 -o myProfiles.chr1.vcf
popdel call myProfiles.txt -r chr2 -o myProfiles.chr2.vcf
...
popdel call myProfiles.txt -r chr22 -o myProfiles.chr22.vcf

Of course you can also divide the single chromosomes into multiple pieces:

popdel call myProfiles.txt -r chr1:1-10000000 -o myProfiles.chr1.1.vcf
popdel call myProfiles.txt -r chr1:10000000-20000000 -o myProfiles.chr1.2.vcf
...

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