Changes between Version 2 and Version 3 of Ticket #1001


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Timestamp:
Nov 10, 2017, 9:16:29 AM (7 years ago)
Author:
Nicklas Nordborg
Comment:

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  • Ticket #1001 – Description

    v2 v3  
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    77`snp.list` and `snp.vcf` are two files containing information about the 51 SNPs we are interested in. We should investigate if we can do without the `snp.list`.
    8 '''[UPDATE] No, we need it, since otherwise the !HaplotypeCaller will check the entire BAM file which will take about one 1 hour instead of ~10 seconds.'''
    9 '''[UPDATE 2] It seems like the `-L` parameter also accepts a VCF-file. Thus we can (re-)use the `snp.vcf` and there is no need for the `snp.list` file.'''
     8[[BR]]'''[UPDATE] No, we need it, since otherwise the !HaplotypeCaller will check the entire BAM file which will take about one 1 hour instead of ~10 seconds.'''
     9[[BR]]'''[UPDATE 2] It seems like the `-L` parameter also accepts a VCF-file. Thus we can (re-)use the `snp.vcf` and there is no need for the `snp.list` file.'''
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