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28 bytes removed
, 14:18, 10 February 2015
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| gotcloud genomestrip --run-metadata --conf gotcloud.conf --outdir outputDirectory --numjobs 10 | | gotcloud genomestrip --run-metadata --conf gotcloud.conf --outdir outputDirectory --numjobs 10 |
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− | The metadata pipeline may take a long time to run:
| + | Timing: |
− | * Chromosomes 21 & 22 for 10 BAMs took 1 hour to run with 10 jobs | + | * 10 BAMs, chr 21 and 22: 1 hour, 20 mins with 10 jobs |
| * May take a few weeks to run whole genome on 2,000 BAMs | | * May take a few weeks to run whole genome on 2,000 BAMs |
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| Timing: | | Timing: |
− | * 10 BAMs, chr 21 and 22: 1 hour, 20 mins | + | * 10 BAMs, chr 21 and 22: 1 hour, 20 mins with 10 jobs |
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| === Genotyping Pipeline === | | === Genotyping Pipeline === |
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| gotcloud genomestrip --run-genotype --conf gotcloud.conf --outdir outputDirectory --numjobs 10 | | gotcloud genomestrip --run-genotype --conf gotcloud.conf --outdir outputDirectory --numjobs 10 |
| Timing: | | Timing: |
− | * 10 BAMs, chr 21 and 22: 4 mins | + | * 10 BAMs, chr 21 and 22: 4 mins with 10 jobs |
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| === 3rd-party Site Genotyping/Filtering Pipeline ==== | | === 3rd-party Site Genotyping/Filtering Pipeline ==== |