Runs
sarek_vc_659_bTo_k8s_r2
Processes
Login
Processes
Process
Succeeded
Failed
Aborted
Running
Cached
Retried
Submitted
NFCORE_SAREK:UNZIP_ALLELES
1
NFCORE_SAREK:UNZIP_LOCI
1
NFCORE_SAREK:UNZIP_GC
1
NFCORE_SAREK:UNZIP_RT
1
NFCORE_SAREK:PUBLISH_INPUT_SAMPLESHEET
1
CRAM_FILTER_LOW_READS:SAMTOOLS_IDXSTATS_COUNT
2
CRAM_FILTER_LOW_READS:WRITE_PURGE_REPORT
CRAM_QC_RECAL:SAMTOOLS_STATS
2
CRAM_QC_RECAL:MOSDEPTH
2
BAM_NGSCHECKMATE:BCFTOOLS_MPILEUP
2
BAM_NGSCHECKMATE:NGSCHECKMATE_NCM
1
BAM_CONTAMINATION_ANALYSIS:CONPAIR_PILEUP
2
BAM_CONTAMINATION_ANALYSIS:CONPAIR_CONTAMINATION
1
BAM_VARIANT_CALLING_CNVKIT:CNVKIT_BATCH
1
BAM_VARIANT_CALLING_CNVKIT:CNVKIT_CALL
1
BAM_VARIANT_CALLING_CNVKIT:CNVKIT_EXPORT
1
BAM_VARIANT_CALLING_CNVKIT:CNVKIT_GENEMETRICS
1
BAM_VARIANT_CALLING_GERMLINE_MANTA:MANTA_GERMLINE
1
BAM_VARIANT_CALLING_SENTIEON_HAPLOTYPER:SENTIEON_HAPLOTYPER
5
BAM_VARIANT_CALLING_SENTIEON_HAPLOTYPER:MERGE_SENTIEON_HAPLOTYPER_VCFS
1
BAM_VARIANT_CALLING_SENTIEON_HAPLOTYPER:MERGE_SENTIEON_HAPLOTYPER_GVCFS
BAM_VARIANT_CALLING_SENTIEON_HAPLOTYPER_RF:DV_RESCUE
1
BAM_VARIANT_CALLING_SENTIEON_HAPLOTYPER_RF:DIFF_DV_SENTIEON
1
BAM_VARIANT_CALLING_SENTIEON_HAPLOTYPER_RF:SENTIEON_FORCECALL
1
BAM_VARIANT_CALLING_SENTIEON_HAPLOTYPER_RF:MERGE_FORCECALLED
1
BAM_VARIANT_CALLING_SENTIEON_HAPLOTYPER_RF:SPLIT_MULTIALLELIC
1
VCF_ANNOTATE_INDEL_ENTROPY:BCFTOOLS_QUERY
1
VCF_ANNOTATE_INDEL_ENTROPY:SAMTOOLS_MPILEUP
1
VCF_ANNOTATE_INDEL_ENTROPY:INDEL_ENTROPY_ANNOTATION
1
VCF_ANNOTATE_INDEL_ENTROPY:TABIX_TABIX
1
BAM_VARIANT_CALLING_SENTIEON_HAPLOTYPER_RF:SENTIEON_HAPLOTYPER_RF_FILTER
1
BAM_VARIANT_CALLING_SENTIEON_HAPLOTYPER_RF:GT_CORRECTION
1
BAM_VARIANT_CALLING_SINGLE_STRELKA:STRELKA_SINGLE
5
BAM_VARIANT_CALLING_SINGLE_STRELKA:MERGE_STRELKA
1
BAM_VARIANT_CALLING_SINGLE_STRELKA:MERGE_STRELKA_GENOME
1
BAM_VARIANT_CALLING_GERMLINE_ALL:GERMLINE_CNV
BAM_VARIANT_CALLING_GERMLINE_ALL:BGZIPTABIX_GERMLINE_CNV
BAM_VARIANT_CALLING_TUMOR_ONLY_ALL:BAM_ESTIMATE_SEX
BAM_VARIANT_CALLING_CNVKIT:CNVKIT_BATCH
BAM_VARIANT_CALLING_CNVKIT:CNVKIT_CALL
BAM_VARIANT_CALLING_CNVKIT:CNVKIT_EXPORT
BAM_VARIANT_CALLING_CNVKIT:CNVKIT_GENEMETRICS
BAM_VARIANT_CALLING_TUMOR_ONLY_TNSEQ:SENTIEON_TNHAPLOTYPER2
BAM_VARIANT_CALLING_TUMOR_ONLY_TNSEQ:SENTIEON_TNFILTER
BAM_VARIANT_CALLING_TUMOR_ONLY_MANTA:MANTA_TUMORONLY
BAM_VARIANT_CALLING_SOMATIC_ALL:BAM_ESTIMATE_SEX_NORMAL
1
BAM_VARIANT_CALLING_SOMATIC_ALL:BAM_ESTIMATE_SEX_TUMOR
1
BAM_VARIANT_CALLING_SOMATIC_ALL:SAMTOOLS_CONVERT_CRAM_TO_BAM
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
1
BAM_VARIANT_CALLING_CNVKIT:CNVKIT_BATCH
1
BAM_VARIANT_CALLING_CNVKIT:CNVKIT_CALL
1
BAM_VARIANT_CALLING_CNVKIT:CNVKIT_EXPORT
1
BAM_VARIANT_CALLING_CNVKIT:CNVKIT_GENEMETRICS
1
BAM_VARIANT_CALLING_SOMATIC_MANTA:MANTA_SOMATIC
1
BAM_VARIANT_CALLING_SOMATIC_STRELKA:STRELKA_SOMATIC
9
BAM_VARIANT_CALLING_SOMATIC_STRELKA:MERGE_STRELKA_INDELS
1
BAM_VARIANT_CALLING_SOMATIC_STRELKA:MERGE_STRELKA_SNVS
1
BAM_VARIANT_CALLING_SOMATIC_ALL:MSISENSOR2_MSI
1
BAM_VARIANT_CALLING_SOMATIC_ALL:MSISENSOR2_MSI_tso
1
BAM_VARIANT_CALLING_SOMATIC_ALL:MSISENSOR2_MSI_catalin
1
BAM_VARIANT_CALLING_SOMATIC_TNSEQ:SENTIEON_TNHAPLOTYPER2
1
BAM_VARIANT_CALLING_SOMATIC_TNSEQ:SENTIEON_TNFILTER
1
BAM_VARIANT_CALLING_SOMATIC_ALL:EXTRACT_CHROMOSOMES_TNSEQ
1
BAM_VARIANT_CALLING_SOMATIC_ALL:WHATSHAP_TNSEQ
23
BAM_VARIANT_CALLING_SOMATIC_ALL:CONCAT_WHATSHAP_TNSEQ_VCFS
1
BAM_VARIANT_CALLING_SOMATIC_ALL:FILTER_TNSEQ_VCF_FOR_SOMATIC
1
BAM_VARIANT_CALLING_SOMATIC_ALL:TIH_HRD_CALLING
1
1
BAM_VARIANT_CALLING_SOMATIC_ALL:TIH_HRD_PLTF
1
BAM_VARIANT_CALLING_SOMATIC_ALL:N7_COSMIC_SIGS
1
BAM_VARIANT_CALLING_SOMATIC_ALL:SCARHRD
1
VCF_SOMATIC_SNV_INDEL:PREP_TNSEQ_SNV
1
VCF_SOMATIC_SNV_INDEL:PREP_STRELKA_INDEL
1
VCF_SOMATIC_SNV_INDEL:BCFTOOLS_CONCAT
1
VCF_SOMATIC_SNV_INDEL:EXTRACT_CHROMOSOMES
1
VCF_SOMATIC_SNV_INDEL:WHATSHAP
23
VCF_SOMATIC_SNV_INDEL:CONCAT_WHATSHAP_VCFS
1
VCF_SOMATIC_SNV_INDEL:ENSEMBLVEP_VEP
1
VCF_SOMATIC_SNV_INDEL:TABIX_VEP
1
VCF_SOMATIC_SNV_INDEL:LABEL_HOTSPOTS
1
VCF_SOMATIC_SNV_INDEL:ANNOTATE_BED_INFO
1
VCF_SOMATIC_SNV_INDEL:SOFT_FILTER_VCF
1
VCF_SOMATIC_SNV_INDEL:TMB_SNV_INDEL
1
BAM_VARIANT_CALLING_TUMOR_ONLY_TNSEQ:SENTIEON_TNHAPLOTYPER2
1
BAM_VARIANT_CALLING_TUMOR_ONLY_TNSEQ:SENTIEON_TNFILTER
1
VCF_ANNOTATE_SNPEFF:SNPEFF_SNPEFF
1
VCF_ANNOTATE_SNPEFF:TABIX_BGZIPTABIX
1
HARMONIZE_CHIP_CANDIDATES:BCFTOOLS_NORM
1
HARMONIZE_CHIP_CANDIDATES:BCFTOOLS_SORT
1
BAM_CHIP_DETECTION:TABIX_GERMLINE
1
HARMONIZE_GERMLINE:BCFTOOLS_NORM
1
HARMONIZE_GERMLINE:BCFTOOLS_SORT
1
HARMONIZE_CHIP_PON:BCFTOOLS_NORM
1
HARMONIZE_CHIP_PON:BCFTOOLS_SORT
1
VCF_MERGE_CHARACTERISTICS:MERGE_GERMLINE
1
VCF_MERGE_CHARACTERISTICS:MERGE_CHIP_PON
1
BAM_CHIP_DETECTION:PRE_FILTER_CHIP_CANDIDATES
1
BAM_CHIP_DETECTION:BCFTOOLS_STRIP_FILTER
1
BAM_CHIP_DETECTION:SENTIEON_GENOTYPE
1
BAM_CHIP_DETECTION:TRANSFER_CALLER_AD
1
BAM_CHIP_DETECTION:SCORE_CHIP_VARIANTS
1
VCF_DECONFLICT_VARIANTS:DECONFLICT_VARIANTS
1
SAREK:GENERATE_CHIP_REPORT
1
VCF_QC_BCFTOOLS_VCFTOOLS:BCFTOOLS_STATS
8
VCF_QC_BCFTOOLS_VCFTOOLS:VCFTOOLS_TSTV_COUNT
8
VCF_QC_BCFTOOLS_VCFTOOLS:VCFTOOLS_TSTV_QUAL
8
VCF_QC_BCFTOOLS_VCFTOOLS:VCFTOOLS_SUMMARY
8
CRAM_HLATYPING_ALL:CRAM_FILTER_HLA
1
CRAM_HLATYPING_ALL:SEQTK_SAMPLE
1
FASTQ_HLATYPING_OPTITYPE:OPTITYPE
1
CRAM_HLATYPING_ALL:HLA_CONVERT_OPTITYPE
1
VCF_ANNOTATE_REPEATMASKER:BCFTOOLS_ANNOTATE
8
VCF_ANNOTATE_BLACKLIST:BCFTOOLS_ANNOTATE
8
VCF_ANNOTATE_LOWDEPTH:BCFTOOLS_ANNOTATE
8
VCF_ANNOTATE_SNPEFF:SNPEFF_SNPEFF
8
VCF_ANNOTATE_SNPEFF:TABIX_BGZIPTABIX
8
VCF_ANNOTATE_MERGE:ENSEMBLVEP_VEP
8
VCF_ANNOTATE_MERGE:TABIX_TABIX
8
VCF_ANNOTATE_SNPEFF:SNPEFF_SNPEFF
1
VCF_ANNOTATE_SNPEFF:TABIX_BGZIPTABIX
1
VCF_TMB:TMB
1
SAREK:AGGREGATE_VARIANT_QC
1
SAREK:VARIANT_QC_TO_CSV
1
SAREK:MULTIQC
1
SAREK:WRITE_TRACKER_YML
1