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GotCloud: GenomeSTRiP Pipeline

28 bytes removed, 13:18, 10 February 2015
Running GotCloud/GenomeSTRiP
gotcloud genomestrip --run-metadata --conf gotcloud.conf --outdir outputDirectory --numjobs 10
The metadata pipeline may take a long time to runTiming:* Chromosomes 10 BAMs, chr 21 & and 22 for 10 BAMs took : 1 hour to run , 20 mins with 10 jobs
* May take a few weeks to run whole genome on 2,000 BAMs
Timing:
* 10 BAMs, chr 21 and 22: 1 hour, 20 minswith 10 jobs
=== Genotyping Pipeline ===
gotcloud genomestrip --run-genotype --conf gotcloud.conf --outdir outputDirectory --numjobs 10
Timing:
* 10 BAMs, chr 21 and 22: 4 minswith 10 jobs
=== 3rd-party Site Genotyping/Filtering Pipeline ====

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