Processes


COPY_INPUT_TO_OUTDIR	1	1
RNAFUSION:CAT_FASTQ
RNAFUSION:SEQTK_SAMPLE	48	48
RNAFUSION:FASTQC	48	48
TRIM_WORKFLOW:FASTP	48	48
TRIM_WORKFLOW:FASTQC_FOR_FASTP	48	48
RNAFUSION:KALLISTO_INDEX	1	1
RNAFUSION:KALLISTO_QUANT	48	48
RNAFUSION:KALLISTO_TO_TX2GENE_QC	48	48
RNAFUSION:KALLISTO_TO_MULTIQC	48	48
RNAFUSION:GTF2BED	1
ARRIBA_WORKFLOW:STAR_FOR_ARRIBA	48	48
ARRIBA_WORKFLOW:ARRIBA	48	48
ARRIBA_WORKFLOW:ARRIBA_FILTER_SAME_GENE	48	48
ARRIBA_WORKFLOW:SAMTOOLS_SORT_FOR_ARRIBA	48	48
ARRIBA_WORKFLOW:SAMTOOLS_VIEW_FOR_ARRIBA	48	48
ARRIBA_WORKFLOW:SAMTOOLS_INDEX_FOR_ARRIBA	48	48
STARFUSION_WORKFLOW:STAR_FOR_STARFUSION	48	48
STARFUSION_WORKFLOW:SAMTOOLS_INDEX_FOR_STARFUSION	48	48
STARFUSION_WORKFLOW:SAMTOOLS_VIEW_FOR_STARFUSION	48	48
STARFUSION_WORKFLOW:SAMTOOLS_INDEX_FOR_STARFUSION_CRAM	48	48
STARFUSION_WORKFLOW:STARFUSION	48	48
STARFUSION_WORKFLOW:STARFUSION_FILTER	48
FUSIONREPORT_WORKFLOW:FUSIONREPORT	48
FUSIONINSPECTOR_WORKFLOW:FUSIONINSPECTOR	48		1
FUSIONINSPECTOR_WORKFLOW:AGAT_CONVERTSPGFF2TSV	48
FUSIONINSPECTOR_WORKFLOW:VCF_COLLECT	48
FUSIONINSPECTOR_WORKFLOW:ARRIBA_VISUALISATION	48
RNAFUSION:CTATSPLICING_STARTOCANCERINTRONS	48	48
RNAFUSION:CANCER_INTRONS_TO_VCF	48
QC_WORKFLOW:GATK4_MARKDUPLICATES	48	48
QC_WORKFLOW:PICARD_COLLECTRNASEQMETRICS	48	15	2
QC_WORKFLOW:PICARD_COLLECTINSERTSIZEMETRICS	48	48
BAM_RSEQC:RSEQC_BAMSTAT	48	48
BAM_RSEQC:RSEQC_INNERDISTANCE	48
BAM_RSEQC:RSEQC_INFEREXPERIMENT	48
BAM_RSEQC:RSEQC_JUNCTIONANNOTATION	48
BAM_RSEQC:RSEQC_JUNCTIONSATURATION	48		3
BAM_RSEQC:RSEQC_READDISTRIBUTION	48
BAM_RSEQC:RSEQC_READDUPLICATION	48	47
QC_WORKFLOW:SEQTOOL_QC	48	48
QC_WORKFLOW:SEQTOOL_WHOLE_BAM_SATURATION	48	48
QC_WORKFLOW:SEQTOOL_TO_MULTIQC	48	48
QC_WORKFLOW:PRESEQ_LCEXTRAP	48	48
QC_WORKFLOW:PRESEQ_TO_MULTIQC	48
RNA_CONTAMINATION_DETECTION_WORKFLOW:NGSCheckMATE	48	48
RNA_CONTAMINATION_DETECTION_WORKFLOW:EXTRACT_VAF_FEATURES	48
RNA_CONTAMINATION_DETECTION_WORKFLOW:PREDICT_CONTAMINATION	48
RNAFUSION:CONTAMINATION_TO_MULTIQC	48
RNAFUSION:MULTIQC	1
RNAFUSION:MULTIQC_GENERAL_STATS_TXT_TO_JSON	1
RNAFUSION:MULTIQC_GENERAL_STATS_TXT_TO_TSV	1