Processes

NFCORE_SAREK:PUBLISH_INPUT_SAMPLESHEET
1
CRAM_FILTER_LOW_READS:SAMTOOLS_IDXSTATS_COUNT
968
CRAM_FILTER_LOW_READS:WRITE_PURGE_REPORT
CRAM_QC_RECAL:SAMTOOLS_STATS
968 10
CRAM_QC_RECAL:MOSDEPTH
968
BAM_NGSCHECKMATE:BCFTOOLS_MPILEUP
BAM_NGSCHECKMATE:NGSCHECKMATE_NCM
BAM_VARIANT_CALLING_TUMOR_ONLY_ALL:BAM_ESTIMATE_SEX
BAM_VARIANT_CALLING_TUMOR_ONLY_TNSEQ:SENTIEON_TNHAPLOTYPER2
BAM_VARIANT_CALLING_TUMOR_ONLY_TNSEQ:SENTIEON_TNFILTER
BAM_VARIANT_CALLING_SOMATIC_ALL:BAM_ESTIMATE_SEX_NORMAL
208
BAM_VARIANT_CALLING_SOMATIC_ALL:BAM_ESTIMATE_SEX_TUMOR
760
BAM_VARIANT_CALLING_SOMATIC_ALL:SAMTOOLS_CONVERT_CRAM_TO_BAM
BAM_VARIANT_CALLING_SOMATIC_STRELKA:STRELKA_SOMATIC
6840 31
BAM_VARIANT_CALLING_SOMATIC_STRELKA:MERGE_STRELKA_INDELS
760
BAM_VARIANT_CALLING_SOMATIC_STRELKA:MERGE_STRELKA_SNVS
760
BAM_VARIANT_CALLING_SOMATIC_TNSEQ:SENTIEON_TNHAPLOTYPER2
760 5
BAM_VARIANT_CALLING_SOMATIC_TNSEQ:SENTIEON_TNFILTER
760
VCF_SOMATIC_SNV_INDEL:PREP_TNSEQ_SNV
760
VCF_SOMATIC_SNV_INDEL:PREP_STRELKA_INDEL
760
VCF_SOMATIC_SNV_INDEL:BCFTOOLS_CONCAT
760
VCF_SOMATIC_SNV_INDEL:EXTRACT_CHROMOSOMES
760
VCF_SOMATIC_SNV_INDEL:WHATSHAP
18274
VCF_SOMATIC_SNV_INDEL:CONCAT_WHATSHAP_VCFS
760
VCF_SOMATIC_SNV_INDEL:ENSEMBLVEP_VEP
760 1
VCF_SOMATIC_SNV_INDEL:TABIX_VEP
760
VCF_SOMATIC_SNV_INDEL:LABEL_HOTSPOTS
760
VCF_SOMATIC_SNV_INDEL:ANNOTATE_BED_INFO
760
VCF_SOMATIC_SNV_INDEL:HARD_FILTER_VCF
760
VCF_SOMATIC_SNV_INDEL:TMB_SNV_INDEL
760
VCF_QC_BCFTOOLS_VCFTOOLS:BCFTOOLS_STATS
2280
VCF_QC_BCFTOOLS_VCFTOOLS:VCFTOOLS_TSTV_COUNT
2280
VCF_QC_BCFTOOLS_VCFTOOLS:VCFTOOLS_TSTV_QUAL
2280
VCF_QC_BCFTOOLS_VCFTOOLS:VCFTOOLS_SUMMARY
2280
SAREK:AGGREGATE_VARIANT_QC
1
SAREK:VARIANT_QC_TO_CSV
1
SAREK:MULTIQC
1 1
SAREK:WRITE_TRACKER_YML
1