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		47
RNAFUSION:GTF2BED	1
ARRIBA_WORKFLOW:STAR_FOR_ARRIBA	48		48
ARRIBA_WORKFLOW:ARRIBA	48		47	1
ARRIBA_WORKFLOW:SAMTOOLS_SORT_FOR_ARRIBA	48		32	11
ARRIBA_WORKFLOW:SAMTOOLS_VIEW_FOR_ARRIBA	48		23	21
ARRIBA_WORKFLOW:SAMTOOLS_INDEX_FOR_ARRIBA	48		27	23
STARFUSION_WORKFLOW:STAR_FOR_STARFUSION	48		11	31
STARFUSION_WORKFLOW:SAMTOOLS_INDEX_FOR_STARFUSION	48		17	31
STARFUSION_WORKFLOW:SAMTOOLS_VIEW_FOR_STARFUSION	48		15	32
STARFUSION_WORKFLOW:SAMTOOLS_INDEX_FOR_STARFUSION_CRAM	48		16	32
STARFUSION_WORKFLOW:STARFUSION	48		11	34
STARFUSION_WORKFLOW:STARFUSION_FILTER	47	1		35
FUSIONREPORT_WORKFLOW:FUSIONREPORT	48			34
FUSIONINSPECTOR_WORKFLOW:FUSIONINSPECTOR	38			35
FUSIONINSPECTOR_WORKFLOW:AGAT_CONVERTSPGFF2TSV	38			35
FUSIONINSPECTOR_WORKFLOW:VCF_COLLECT	38			35
FUSIONINSPECTOR_WORKFLOW:ARRIBA_VISUALISATION	38			35
RNAFUSION:CTATSPLICING_STARTOCANCERINTRONS	48		15	32
RNAFUSION:CANCER_INTRONS_TO_VCF	48			32
QC_WORKFLOW:GATK4_MARKDUPLICATES	48		15	32
QC_WORKFLOW:PICARD_COLLECTRNASEQMETRICS	48		9	35
QC_WORKFLOW:PICARD_COLLECTINSERTSIZEMETRICS	48		16	32
BAM_RSEQC:RSEQC_BAMSTAT	48		15	32
BAM_RSEQC:RSEQC_INNERDISTANCE	48			32
BAM_RSEQC:RSEQC_INFEREXPERIMENT	48			32
BAM_RSEQC:RSEQC_JUNCTIONANNOTATION	48			32
BAM_RSEQC:RSEQC_JUNCTIONSATURATION	48			32
BAM_RSEQC:RSEQC_READDISTRIBUTION	48			32
BAM_RSEQC:RSEQC_READDUPLICATION	48		15	32
QC_WORKFLOW:SEQTOOL_QC	48		16	32
QC_WORKFLOW:SEQTOOL_WHOLE_BAM_SATURATION	48		16	32
QC_WORKFLOW:SEQTOOL_TO_MULTIQC	48		16	32
QC_WORKFLOW:PRESEQ_LCEXTRAP	48		15	32
QC_WORKFLOW:PRESEQ_TO_MULTIQC	48			32
RNA_CONTAMINATION_DETECTION_WORKFLOW:NGSCheckMATE	48		15	32
RNA_CONTAMINATION_DETECTION_WORKFLOW:EXTRACT_VAF_FEATURES	48			32
RNA_CONTAMINATION_DETECTION_WORKFLOW:PREDICT_CONTAMINATION	48			32
RNAFUSION:CONTAMINATION_TO_MULTIQC	48			32
RNAFUSION:MULTIQC	1			1
RNAFUSION:MULTIQC_GENERAL_STATS_TXT_TO_JSON	1			1
RNAFUSION:MULTIQC_GENERAL_STATS_TXT_TO_TSV	1			1
ARRIBA_WORKFLOW:ARRIBA_FILTER_SAME_GENE	48		47	1