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	9
TRIM_WORKFLOW:FASTP	96
TRIM_WORKFLOW:FASTQC_FOR_FASTP	96
RNAFUSION:KALLISTO_INDEX	1
RNAFUSION:KALLISTO_QUANT	96
RNAFUSION:KALLISTO_TO_TX2GENE_QC	96
RNAFUSION:KALLISTO_TO_MULTIQC	96
RNAFUSION:GTF2BED	1
FASTQ_ALIGN_STAR:STAR_ALIGNMENT	96
FASTQ_ALIGN_STAR:SAMTOOLS_INDEX_STAR_ALIGNMENT	96
RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM	96
RNAFUSION:SAMTOOLS_INDEX_ALIGNMENT_CRAM	96
ARRIBA_WORKFLOW:ARRIBA	96
ARRIBA_WORKFLOW:ARRIBA_FILTER	96
STARFUSION_WORKFLOW:STARFUSION	96	5
STARFUSION_WORKFLOW:STARFUSION_FILTER	96
FUSIONREPORT_WORKFLOW:FUSIONREPORT	96
FUSIONINSPECTOR_WORKFLOW:FUSIONINSPECTOR	96
FUSIONINSPECTOR_WORKFLOW:AGAT_CONVERTSPGFF2TSV	96
FUSIONINSPECTOR_WORKFLOW:VCF_COLLECT	96
FUSIONINSPECTOR_WORKFLOW:ARRIBA_VISUALISATION	96
RNAFUSION:CTATSPLICING_STARTOCANCERINTRONS	96
RNAFUSION:CANCER_INTRONS_TO_VCF	96
QC_WORKFLOW:GATK4_MARKDUPLICATES	96
QC_WORKFLOW:PICARD_COLLECTRNASEQMETRICS
QC_WORKFLOW:PICARD_COLLECTINSERTSIZEMETRICS
BAM_RSEQC:RSEQC_BAMSTAT	96	1
BAM_RSEQC:RSEQC_INNERDISTANCE	96
BAM_RSEQC:RSEQC_INFEREXPERIMENT	96
BAM_RSEQC:RSEQC_JUNCTIONANNOTATION	96	6
BAM_RSEQC:RSEQC_JUNCTIONSATURATION	96
BAM_RSEQC:RSEQC_READDISTRIBUTION	96
BAM_RSEQC:RSEQC_READDUPLICATION	96
QC_WORKFLOW:SEQTOOL_QC	96	1
QC_WORKFLOW:SEQTOOL_WHOLE_BAM_SATURATION	96
QC_WORKFLOW:RSEQC_TO_MULTIQC	96
QC_WORKFLOW:SEQTOOL_TO_MULTIQC	96
QC_WORKFLOW:PRESEQ_LCEXTRAP	96	4
QC_WORKFLOW:PRESEQ_TO_MULTIQC	96
RNA_CONTAMINATION_DETECTION_WORKFLOW:NGSCheckMATE	96
RNA_CONTAMINATION_DETECTION_WORKFLOW:EXTRACT_VAF_FEATURES	96
RNA_CONTAMINATION_DETECTION_WORKFLOW:PREDICT_CONTAMINATION	96
RNAFUSION:CONTAMINATION_SKIPPED_LOW_READS
RNAFUSION:CONTAMINATION_TO_MULTIQC	96
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