Processes


NFCORE_RNAFUSION:GENERATE_SAMPLE_TYPE_MAP	1
DEMULTIPLEX:BCLCONVERT	8
DEMULTIPLEX:FLOWCELL_QC	1
DEMULTIPLEX:AGGREGATE_DEMUX_STATS	1
DEMULTIPLEX:SAMPLESHEET_CHECK	1
DEMULTIPLEX:CAT_FASTQ	96
DEMULTIPLEX:SAMPLESHEET_FROM_MERGED	1
RNAFUSION:FASTQC	96		7
TRIM_WORKFLOW:FASTP	96		1
TRIM_WORKFLOW:FASTQC_FOR_FASTP	96		2
RNAFUSION:KALLISTO_INDEX	1
RNAFUSION:KALLISTO_QUANT	96		4
RNAFUSION:KALLISTO_TO_TX2GENE_QC	96
RNAFUSION:KALLISTO_TO_MULTIQC	96
RNAFUSION:GTF2BED	1
FASTQ_ALIGN_STAR:STAR_ALIGNMENT	96	16	16
FASTQ_ALIGN_STAR:SAMTOOLS_INDEX_STAR_ALIGNMENT	96
RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM	96		1
RNAFUSION:SAMTOOLS_INDEX_ALIGNMENT_CRAM	96
ARRIBA_WORKFLOW:ARRIBA	96		6
ARRIBA_WORKFLOW:ARRIBA_FILTER	96
STARFUSION_WORKFLOW:STARFUSION	96		21
STARFUSION_WORKFLOW:STARFUSION_FILTER	96
FUSIONREPORT_WORKFLOW:FUSIONREPORT	96
FUSIONINSPECTOR_WORKFLOW:FUSIONINSPECTOR	42
FUSIONINSPECTOR_WORKFLOW:AGAT_CONVERTSPGFF2TSV	42
FUSIONINSPECTOR_WORKFLOW:VCF_COLLECT	42
FUSIONINSPECTOR_WORKFLOW:ARRIBA_VISUALISATION	42
RNAFUSION:CTATSPLICING_STARTOCANCERINTRONS	96		46
RNAFUSION:CANCER_INTRONS_TO_VCF	96
QC_WORKFLOW:GATK4_MARKDUPLICATES	96		5
QC_WORKFLOW:PICARD_COLLECTRNASEQMETRICS	96		9
QC_WORKFLOW:PICARD_COLLECTINSERTSIZEMETRICS	96		6
BAM_RSEQC:RSEQC_BAMSTAT	96		13
BAM_RSEQC:RSEQC_INNERDISTANCE	96
BAM_RSEQC:RSEQC_INFEREXPERIMENT	96
BAM_RSEQC:RSEQC_JUNCTIONANNOTATION	96		7
BAM_RSEQC:RSEQC_JUNCTIONSATURATION	96		3
BAM_RSEQC:RSEQC_READDISTRIBUTION	96		9
BAM_RSEQC:RSEQC_READDUPLICATION	96		3
QC_WORKFLOW:SEQTOOL_QC	96		7
QC_WORKFLOW:SEQTOOL_WHOLE_BAM_SATURATION	96
QC_WORKFLOW:RSEQC_TO_MULTIQC	96
QC_WORKFLOW:SEQTOOL_TO_MULTIQC	96
QC_WORKFLOW:PRESEQ_LCEXTRAP	96		12
QC_WORKFLOW:PRESEQ_TO_MULTIQC	96
RNA_CONTAMINATION_DETECTION_WORKFLOW:NGSCheckMATE	85		10
RNA_CONTAMINATION_DETECTION_WORKFLOW:EXTRACT_VAF_FEATURES	85
RNA_CONTAMINATION_DETECTION_WORKFLOW:PREDICT_CONTAMINATION	85
RNAFUSION:CONTAMINATION_SKIPPED_LOW_READS	11
RNAFUSION:CONTAMINATION_TO_MULTIQC	85
RNAFUSION:MULTIQC	1
RNAFUSION:MULTIQC_GENERAL_STATS_TXT_TO_JSON	1
RNAFUSION:MULTIQC_GENERAL_STATS_TXT_TO_TSV	1
RNAFUSION:MULTIQC_EXTRACT_CONTROLS	1
RNAFUSION:RUN_LEVEL_INTERMEDIATE	1
RNAFUSION:RUN_LEVEL_METRICS	1