UKBB

After cloning repo on UKBB virtual machine

./get_cram_list.sh ${fold_num}

./unzip_make.sh

process crams as background jobs (done on per folder basis), will also upload finished files to UKKB

./parall_cram_run.sh ${fold_num}

./tryptase.v1.R

Name		Name	Last commit message	Last commit date
Latest commit History 23 Commits
cram		cram
genotype		genotype
reference		reference
tmp		tmp
.gitignore		.gitignore
Python-2.7.tgz		Python-2.7.tgz
README.md		README.md
bwa.zip		bwa.zip
download_cram_run.sh		download_cram_run.sh
get_cram_list.sh		get_cram_list.sh
mean_cov_geno.sh		mean_cov_geno.sh
mean_coverage.v1.sh		mean_coverage.v1.sh
parall_cram_run.sh		parall_cram_run.sh
parseHaplotypes.py		parseHaplotypes.py
run.tryptase.sh		run.tryptase.sh
samtools-1.16.1.tar.bz2		samtools-1.16.1.tar.bz2
tryptase.cnv.tsv		tryptase.cnv.tsv
tryptase.genotype.tsv		tryptase.genotype.tsv
tryptase.sample.tsv		tryptase.sample.tsv
tryptase.sh		tryptase.sh
tryptase.v1.R		tryptase.v1.R
unzip_make.sh		unzip_make.sh

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