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Posts by afadda
... I have the same question. I tried this command but there was no sorted bam files or HLA typing. run-bwamem -o NA12878-hs38 -t 20 -H -s /Hsapiens/hs38DH/hs38DH.fa NA12878_2.fastq.gz NA12878_1.fastq.gz |sh thanks, ...
... Hi, I'm running this command: vcftools --LROH --gzvcf file.vcf.gz --out file --chr 1 and getting this log on the screen: VCFtools - v0.1.13 (C) Adam Auton and Anthony Marcketta 2009 Parameters as interpreted: --gzvcf 0200092201_S3_L002.recalibrate_BOTH.vcf.gz --chr 1 --LROH --out /gpfs/projec ...
... Hi, I'm running the following command to find runs of homozygosity: plink --bfile path/G02 --homozyg --out path/G02 --allow-no-sex I get this log: Writing this text to log file [ path/G02.log ] Analysis started: Sun May 3 14:16:01 2015 Options in effect: --bfile path/G02 --homozy ...
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