Runs
mipeters-bqs..6_16-21-03z
Processes
Login
Processes
Process
Succeeded
Failed
Aborted
Running
Cached
Retried
Submitted
PREPARE_GENOME:BWAMEM1_INDEX
PREPARE_GENOME:BWAMEM2_INDEX
PREPARE_GENOME:DRAGMAP_HASHTABLE
PREPARE_GENOME:GATK4_CREATESEQUENCEDICTIONARY
PREPARE_GENOME:MSISENSORPRO_SCAN
PREPARE_GENOME:MSISENSOR2_SCAN
1
1
PREPARE_GENOME:SAMTOOLS_FAIDX
PREPARE_GENOME:TABIX_BCFTOOLS_ANNOTATIONS
PREPARE_GENOME:TABIX_DBSNP
PREPARE_GENOME:TABIX_GERMLINE_RESOURCE
PREPARE_GENOME:TABIX_KNOWN_SNPS
PREPARE_GENOME:TABIX_KNOWN_INDELS
PREPARE_GENOME:TABIX_PON
PREPARE_GENOME:UNZIP_ALLELES
PREPARE_GENOME:UNZIP_LOCI
PREPARE_GENOME:UNZIP_GC
PREPARE_GENOME:UNZIP_RT
PREPARE_GENOME:UNTAR_CHR_DIR
PREPARE_GENOME:YARA_HLA_INDEX
PREPARE_INTERVALS:BUILD_INTERVALS
PREPARE_INTERVALS:CREATE_INTERVALS_BED
1
1
PREPARE_INTERVALS:GATK4_INTERVALLISTTOBED
PREPARE_INTERVALS:TABIX_BGZIPTABIX_INTERVAL_SPLIT
4
4
PREPARE_INTERVALS:TABIX_BGZIPTABIX_INTERVAL_COMBINED
1
1
NFCORE_SAREK:PUBLISH_INPUT_SAMPLESHEET
1
1
SAREK:SPRING_DECOMPRESS_TO_FQ_PAIR
SAREK:SPRING_DECOMPRESS_TO_R1_FQ
SAREK:SPRING_DECOMPRESS_TO_R2_FQ
CONVERT_FASTQ_INPUT:SAMTOOLS_VIEW_MAP_MAP
CONVERT_FASTQ_INPUT:SAMTOOLS_VIEW_UNMAP_UNMAP
CONVERT_FASTQ_INPUT:SAMTOOLS_VIEW_UNMAP_MAP
CONVERT_FASTQ_INPUT:SAMTOOLS_VIEW_MAP_UNMAP
CONVERT_FASTQ_INPUT:SAMTOOLS_MERGE_UNMAP
CONVERT_FASTQ_INPUT:COLLATE_FASTQ_UNMAP
CONVERT_FASTQ_INPUT:COLLATE_FASTQ_MAP
CONVERT_FASTQ_INPUT:CAT_FASTQ
SAREK:FASTQC
1
1
SAREK:AGGREGATE_FASTQ_QC
1
1
SAREK:FASTP
1
1
1
FASTQ_ALIGN_BWAMEM_MEM2_DRAGMAP_SENTIEON:BWAMEM1_MEM
FASTQ_ALIGN_BWAMEM_MEM2_DRAGMAP_SENTIEON:BWAMEM2_MEM
FASTQ_ALIGN_BWAMEM_MEM2_DRAGMAP_SENTIEON:DRAGMAP_ALIGN
FASTQ_ALIGN_BWAMEM_MEM2_DRAGMAP_SENTIEON:SENTIEON_BWAMEM
24
24
BAM_SENTIEON_DEDUP:SENTIEON_DEDUP
1
1
BAM_POSTDUPLICATES_QC:SEQTOOL_QC
1
1
BAM_QC_PICARD:PICARD_COLLECTMULTIPLEMETRICS
1
1
1
BAM_QC_PICARD:PICARD_COLLECTHSMETRICS
9
8
9
BAM_QC_PICARD:PICARD_COLLECTWGSMETRICS
CRAM_QC_MOSDEPTH_SAMTOOLS:SAMTOOLS_STATS
1
1
1
CRAM_QC_MOSDEPTH_SAMTOOLS:MOSDEPTH
1
1
1
SAREK:AGGREGATE_POSTDEDUP_QC
1
1
SAREK:CRAM_TO_BAM
1
1
BAM_BASERECALIBRATOR_SENTIEON:SENTIEON_QUALCAL
1
1
BAM_APPLYBQSR_SENTIEON:SENTIEON_QUALCAL
1
1
BAM_APPLYBQSR_SENTIEON:SAMTOOLS_INDEX
1
1
SAREK:CRAM_TO_BAM_RECAL
1
1
CRAM_QC_RECAL:SAMTOOLS_STATS
1
1
CRAM_QC_RECAL:MOSDEPTH
1
1
BAM_NGSCHECKMATE:BCFTOOLS_MPILEUP
BAM_NGSCHECKMATE:NGSCHECKMATE_NCM
BAM_VARIANT_CALLING_SOMATIC_ALL:SAMTOOLS_CONVERT_CRAM_TO_BAM
VCF_QC_BCFTOOLS_VCFTOOLS:BCFTOOLS_STATS
VCF_QC_BCFTOOLS_VCFTOOLS:VCFTOOLS_TSTV_COUNT
VCF_QC_BCFTOOLS_VCFTOOLS:VCFTOOLS_TSTV_QUAL
VCF_QC_BCFTOOLS_VCFTOOLS:VCFTOOLS_SUMMARY
SAREK:MULTIQC
1
1