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hap.sh
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#docker run -v /staging/WGS_demo/:/tmp/ pkrusche/hap.py /opt/hap.py/bin/hap.py /tmp/hg19/NA12878.vcf.gz /tmp/Rep17_5/NovaSeq6K-TSPF-NA12878-450-Rep17.hard-filtered.vcf.gz -o /tmp/hap/Rep17_5 -r /tmp/hg19.fa --threads 40 -f /tmp/hg19/ConfidentRegions.bed.gz
#docker run -v /staging/WGS_demo/:/tmp/ pkrusche/hap.py /opt/hap.py/bin/hap.py /tmp/hg19/NA12878.vcf.gz /tmp/Rep17_10/NovaSeq6K-TSPF-NA12878-450-Rep17.hard-filtered.vcf.gz -o /tmp/hap/Rep17_10 -r /tmp/hg19.fa --threads 40 -f /tmp/hg19/ConfidentRegions.bed.gz
#docker run -v /staging/WGS_demo/:/tmp/ pkrusche/hap.py /opt/hap.py/bin/hap.py /tmp/hg19/NA12878.vcf.gz /tmp/Rep17_15/NovaSeq6K-TSPF-NA12878-450-Rep17.hard-filtered.vcf.gz -o /tmp/hap/Rep17_15 -r /tmp/hg19.fa --threads 40 -f /tmp/hg19/ConfidentRegions.bed.gz
docker run -v /staging/WGS_demo/:/tmp/ pkrusche/hap.py /opt/hap.py/bin/hap.py /tmp/hg19/NA12878.vcf.gz /tmp/Rep17_30/ReNovaSeq6K-TSPF-NA12878-450-Rep17.hard-filtered.vcf.gz -o /tmp/hap/Rep17_30 -r /tmp/hg19.fa --threads 40 -f /tmp/hg19/ConfidentRegions.bed.gz
docker run -v /staging/WGS_demo/:/tmp/ pkrusche/hap.py /opt/hap.py/bin/hap.py /tmp/hg19/NA12878.vcf.gz /tmp/Rep18_5/NovaSeq6K-TSPF-NA12878-450-Rep18.hard-filtered.vcf.gz -o /tmp/hap/Rep18_5 -r /tmp/hg19.fa --threads 40 -f /tmp/hg19/ConfidentRegions.bed.gz
docker run -v /staging/WGS_demo/:/tmp/ pkrusche/hap.py /opt/hap.py/bin/hap.py /tmp/hg19/NA12878.vcf.gz /tmp/Rep18_10/NovaSeq6K-TSPF-NA12878-450-Rep18.hard-filtered.vcf.gz -o /tmp/hap/Rep18_10 -r /tmp/hg19.fa --threads 40 -f /tmp/hg19/ConfidentRegions.bed.gz
docker run -v /staging/WGS_demo/:/tmp/ pkrusche/hap.py /opt/hap.py/bin/hap.py /tmp/hg19/NA12878.vcf.gz /tmp/Rep18_15/NovaSeq6K-TSPF-NA12878-450-Rep18.hard-filtered.vcf.gz -o /tmp/hap/Rep18_15 -r /tmp/hg19.fa --threads 40 -f /tmp/hg19/ConfidentRegions.bed.gz
docker run -v /staging/WGS_demo/:/tmp/ pkrusche/hap.py /opt/hap.py/bin/hap.py /tmp/hg19/NA12878.vcf.gz /tmp/Rep18_30/NovaSeq6K-TSPF-NA12878-450-Rep18.hard-filtered.vcf.gz -o /tmp/hap/Rep18_30 -r /tmp/hg19.fa --threads 40 -f /tmp/hg19/ConfidentRegions.bed.gz
docker run -v /staging/WGS_demo/:/tmp/ pkrusche/hap.py /opt/hap.py/bin/hap.py /tmp/hg19/NA12878.vcf.gz /tmp/Rep19_5/NovaSeq6K-TSPF-NA12878-450-Rep19.hard-filtered.vcf.gz -o /tmp/hap/Rep19_5 -r /tmp/hg19.fa --threads 40 -f /tmp/hg19/ConfidentRegions.bed.gz
docker run -v /staging/WGS_demo/:/tmp/ pkrusche/hap.py /opt/hap.py/bin/hap.py /tmp/hg19/NA12878.vcf.gz /tmp/Rep19_10/NovaSeq6K-TSPF-NA12878-450-Rep19.hard-filtered.vcf.gz -o /tmp/hap/Rep19_10 -r /tmp/hg19.fa --threads 40 -f /tmp/hg19/ConfidentRegions.bed.gz
docker run -v /staging/WGS_demo/:/tmp/ pkrusche/hap.py /opt/hap.py/bin/hap.py /tmp/hg19/NA12878.vcf.gz /tmp/Rep19_15/NovaSeq6K-TSPF-NA12878-450-Rep19.hard-filtered.vcf.gz -o /tmp/hap/Rep19_15 -r /tmp/hg19.fa --threads 40 -f /tmp/hg19/ConfidentRegions.bed.gz
docker run -v /staging/WGS_demo/:/tmp/ pkrusche/hap.py /opt/hap.py/bin/hap.py /tmp/hg19/NA12878.vcf.gz /tmp/Rep19_30/NovaSeq6K-TSPF-NA12878-450-Rep19.hard-filtered.vcf.gz -o /tmp/hap/Rep19_30 -r /tmp/hg19.fa --threads 40 -f /tmp/hg19/ConfidentRegions.bed.gz