Processes


BCL_TO_FASTQ:BCLCONVERT	8
BCL_TO_FASTQ:SAMPLESHEET_CHECK	1
DAQ:FLOWCELL_QC	1
DAQ:CAT_FASTQ	192
FASTQ_NGSCHECKMATE:NGSCHECKMATE_FASTQ	192	8
FASTQ_NGSCHECKMATE:NGSCHECKMATE_VAFNCM	1
DAQ:ESTIMATEGENDER	192
DAQ:MERGE_GENDER	1
DAQ:FASTP	384
DAQ:SENTIEON_BWAMEM	384
DAQ:SAMTOOLS_MERGE	192
DAQ:MARKDUPLICATES_SENTIEON	192	1
BAM_POSTDEDUP_QC:SAMTOOLS_STATS	192	3
BAM_POSTDEDUP_QC:MOSDEPTH	192	2
BAM_POSTDEDUP_QC:SENTIEON_MULTIPLE_METRICS	192
BAM_POSTDEDUP_QC:SENTIEON_HSMETRICS	1536
BAM_POSTDEDUP_QC:SEQTOOL	192
SENTIEON_BQSR:QUALCAL_TABLE	192
SENTIEON_BQSR:QUALCAL_APPLY	192
DAQ:AGGREGATE_POSTDEDUP_QC	1
DAQ:QC_JSON_TO_CSV	1
DAQ:MULTIQC	1
DAQ:WRITE_TRACKER_YML	1
DAQ:GENERATE_RESULTS_CSV	1
DAQ:UPLOAD_RESULTS_CSV	1
DAQ:SAMTOOLS_IDXSTATS_COUNT	192
DAQ:WRITE_SKIPPED_CONTROL_METRICS
BAM_VARIANT_CALLING_SOMATIC_TNSEQ:SENTIEON_TNHAPLOTYPER2	2	2
BAM_VARIANT_CALLING_SOMATIC_TNSEQ:SENTIEON_TNFILTER	2
BAM_VARIANT_CALLING_SOMATIC_STRELKA:STRELKA_SOMATIC	18
BAM_VARIANT_CALLING_SOMATIC_STRELKA:MERGE_STRELKA_INDELS	2
BAM_VARIANT_CALLING_SOMATIC_STRELKA:MERGE_STRELKA_SNVS	2
VCF_SOMATIC_SNV_INDEL:PREP_TNSEQ_SNV	2
VCF_SOMATIC_SNV_INDEL:PREP_STRELKA_INDEL	2
VCF_SOMATIC_SNV_INDEL:BCFTOOLS_CONCAT	2
VCF_SOMATIC_SNV_INDEL:EXTRACT_CHROMOSOMES	2
VCF_SOMATIC_SNV_INDEL:WHATSHAP	49
VCF_SOMATIC_SNV_INDEL:CONCAT_WHATSHAP_VCFS	2
VCF_SOMATIC_SNV_INDEL:ENSEMBLVEP_VEP	2
VCF_SOMATIC_SNV_INDEL:TABIX_VEP	2
VCF_SOMATIC_SNV_INDEL:LABEL_HOTSPOTS	2
VCF_SOMATIC_SNV_INDEL:ANNOTATE_BED_INFO	2
VCF_SOMATIC_SNV_INDEL:SOFT_FILTER_VCF	2
VCF_SOMATIC_SNV_INDEL:TMB_SNV_INDEL	2
BAM_VARIANT_CALLING_SOMATIC_FACETS:CONVERT_NORMAL_TO_BAM
BAM_VARIANT_CALLING_SOMATIC_FACETS:CONVERT_TUMOR_TO_BAM
BAM_VARIANT_CALLING_SOMATIC_FACETS:CNV_FACETS	2
CONTROL_SOMATIC_VC:MSISENSOR2_MSI	2
BAM_VARIANT_CALLING_SENTIEON_HAPLOTYPER:SENTIEON_HAPLOTYPER	10
BAM_VARIANT_CALLING_SENTIEON_HAPLOTYPER:MERGE_SENTIEON_HAPLOTYPER_VCFS	2
BAM_VARIANT_CALLING_SENTIEON_HAPLOTYPER:MERGE_SENTIEON_HAPLOTYPER_GVCFS
BAM_VARIANT_CALLING_SENTIEON_HAPLOTYPER_RF:DV_RESCUE	2
BAM_VARIANT_CALLING_SENTIEON_HAPLOTYPER_RF:DIFF_DV_SENTIEON	2
BAM_VARIANT_CALLING_SENTIEON_HAPLOTYPER_RF:SENTIEON_FORCECALL	2
BAM_VARIANT_CALLING_SENTIEON_HAPLOTYPER_RF:MERGE_FORCECALLED	2
BAM_VARIANT_CALLING_SENTIEON_HAPLOTYPER_RF:SPLIT_MULTIALLELIC	2
VCF_ANNOTATE_INDEL_ENTROPY:BCFTOOLS_QUERY	2
VCF_ANNOTATE_INDEL_ENTROPY:SAMTOOLS_MPILEUP	2
VCF_ANNOTATE_INDEL_ENTROPY:INDEL_ENTROPY_ANNOTATION	2
VCF_ANNOTATE_INDEL_ENTROPY:TABIX_TABIX	2
BAM_VARIANT_CALLING_SENTIEON_HAPLOTYPER_RF:SENTIEON_HAPLOTYPER_RF_FILTER	2
BAM_VARIANT_CALLING_SENTIEON_HAPLOTYPER_RF:GT_CORRECTION	2
CRAM_HLATYPING_ALL:CRAM_FILTER_HLA	2
CRAM_HLATYPING_ALL:SEQTK_SAMPLE	2
FASTQ_HLATYPING_OPTITYPE:OPTITYPE	2
CRAM_HLATYPING_ALL:HLA_CONVERT_OPTITYPE	2
CONTROL_VARIANT_CALLING:TAR_CONTROL_VC_OUTPUTS	4
POSITIVE_SOMATIC_METRICS:MSI
POSITIVE_SOMATIC_METRICS:TMB
POSITIVE_SOMATIC_METRICS:POSITIVE_SOMATIC_SNV_INDEL
POSITIVE_SOMATIC_METRICS:POSITIVE_SOMATIC_CNV
NEGATIVE_SOMATIC_METRICS:MSI	2
NEGATIVE_SOMATIC_METRICS:TMB	2
NEGATIVE_SOMATIC_METRICS:NEGATIVE_SOMATIC_SNV_INDEL	2
NEGATIVE_SOMATIC_METRICS:NEGATIVE_SOMATIC_CNV	2
GERMLINE_METRICS:GERMLINE_SNV_INDEL	2
GERMLINE_METRICS:GERMLINE_HLA	2
CONTROL_METRICS:MERGE_CONTROL_METRICS	1
GERMLINE_CNV:ClusterPanelRegions	1
GERMLINE_CNV:CalcPanelCoverage	192	12
GERMLINE_CNV:ProcessBatch	1
GERMLINE_CNV:ModelSingle	2659	495
GERMLINE_CNV:AggregateBatchPerSampleData	192	36