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workflow/rules/sent_hybrid_ug_ont_modular.smk
workflow/rules/sent_hybrid_ug_pb.smk
workflow/rules/sent_hybrid_ug_pb_modular.refactored.smk
workflow/rules/sent_hybrid_ug_pb_modular.smk
workflow/rules/sent_snv_ont.smk
workflow/rules/sent_snv_pb.smk
workflow/rules/sent_snv_ug.smk
workflow/rules/sentieon.smk
workflow/rules/sentieon_gatk.smk
workflow/rules/sentieon_markdups.smk
workflow/rules/sentieon_new_gatk.smk
workflow/rules/sentieon_pangenome_shortreads.smk
workflow/rules/sentieon_pangenome_ug.smk
workflow/rules/sentmm2_align_sort.smk
workflow/rules/sentmm2ont_align_sort.smk
workflow/rules/seqfu.smk
workflow/rules/seqtk_subsamplefq.smk
workflow/rules/site_mix_contam.smk
workflow/rules/smaca.smk
workflow/rules/smn_copynumbercaller.smk
workflow/rules/snpeff.smk
workflow/rules/stargazer.smk
workflow/rules/strelka2.smk
workflow/rules/strobe_align_sort.smk
workflow/rules/supporting_data.smk
workflow/rules/surveyor.smk
workflow/rules/test_cluster_job.smk
workflow/rules/tiddit.smk
workflow/rules/varnet.smk
workflow/rules/vep.smk
workflow/rules/verifybamid2_contam.smk
workflow/rules/vpot.smk
workflow/rules/workflow_staging.smk
workflow/rules/explore/str_spy.smk
workflow/rules/explore/svaba.smk
workflow/rules/explore/svim_asm.smk
workflow/rules/explore/svlib.smk
workflow/rules/to_conv_from_bam_to_cram/paragraph.smk
workflow/schemas/analysis_manifest.schema.yaml
workflow/schemas/config.schema.yaml
workflow/schemas/global.schema.yaml
workflow/schemas/samples.schema.yaml
workflow/schemas/supporting_dirs_schema.yaml
workflow/schemas/units.schema.yaml
workflow/scripts/alignment_preservation_audit.py
workflow/scripts/bclconvert_fastq_list_to_units.py
workflow/scripts/bclconvert_metrics_summary.py
workflow/scripts/buid_conc_cmds.sh
workflow/scripts/build_multiqc_header.py
workflow/scripts/build_multiqc_intro.py
workflow/scripts/calc_norm_cov_sd.R
workflow/scripts/calc_norm_cov_sd_2.R
workflow/scripts/classify_bclconvert_run_loading.py
workflow/scripts/classify_var_by_type_size.py
workflow/scripts/format_multiqc_float_tables.py
workflow/scripts/htd_calls_mqc.py
workflow/scripts/illumina_run_metrics.py
workflow/scripts/link_source_fqs.py
workflow/scripts/manta_uniter.py
workflow/scripts/multiqc_custom_output_inventory.py
workflow/scripts/parse-vcfeval-summary.py
workflow/scripts/parse_bclconvert_samplesheet.py
workflow/scripts/read_dispositions_report.py
workflow/scripts/relatedness_report.py
workflow/scripts/sort_concat_chrm_list.py