scripts-for-nexus-pipeline

version 1.0.0+dev

Internal scripts for working with DNAnexus

Name		Name	Last commit message	Last commit date
Latest commit History 4 Commits
.gitignore		.gitignore
LICENSE		LICENSE
README.md		README.md
check_if_aspera_completed.sh		check_if_aspera_completed.sh
check_jobs_status.sh		check_jobs_status.sh
create_dir_and_links_on_nexus.sh		create_dir_and_links_on_nexus.sh
create_worklist.sh		create_worklist.sh
dna-nexus-steps.sh		dna-nexus-steps.sh
download_md5s.sh		download_md5s.sh
extract_rg_pg_lines.sh		extract_rg_pg_lines.sh
fix_insert_sizes.py		fix_insert_sizes.py
generate_bam_header.sh		generate_bam_header.sh
generate_bam_header_from_tsv.sh		generate_bam_header_from_tsv.sh
generate_merged_bam_header.py		generate_merged_bam_header.py
generate_xmls.sh		generate_xmls.sh
process_bams_and_submit_from_nexus.sh		process_bams_and_submit_from_nexus.sh
remove_failed_samples_from_tsv.py		remove_failed_samples_from_tsv.py
replace_bam_paths_with_dna_nexus_file_ids.groovy		replace_bam_paths_with_dna_nexus_file_ids.groovy
upload_bam_headers_to_nexus.sh		upload_bam_headers_to_nexus.sh

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