Processes


COPY_INPUT_TO_OUTDIR	1
RNAFUSION:CAT_FASTQ
RNAFUSION:SEQTK_SAMPLE	8
RNAFUSION:FASTQC	8
TRIM_WORKFLOW:FASTP	8
TRIM_WORKFLOW:FASTQC_FOR_FASTP	8
RNAFUSION:KALLISTO_INDEX	1
RNAFUSION:KALLISTO_QUANT	8
RNAFUSION:KALLISTO_TO_TX2GENE_QC	8
RNAFUSION:KALLISTO_TO_MULTIQC	8
RNAFUSION:GTF2BED	1
ARRIBA_WORKFLOW:STAR_FOR_ARRIBA	8
ARRIBA_WORKFLOW:ARRIBA	8
ARRIBA_WORKFLOW:SAMTOOLS_SORT_FOR_ARRIBA	8
ARRIBA_WORKFLOW:SAMTOOLS_VIEW_FOR_ARRIBA	8
ARRIBA_WORKFLOW:SAMTOOLS_INDEX_FOR_ARRIBA	8
STARFUSION_WORKFLOW:STAR_FOR_STARFUSION	8
STARFUSION_WORKFLOW:SAMTOOLS_INDEX_FOR_STARFUSION	8
STARFUSION_WORKFLOW:SAMTOOLS_VIEW_FOR_STARFUSION	8
STARFUSION_WORKFLOW:SAMTOOLS_INDEX_FOR_STARFUSION_CRAM	8
STARFUSION_WORKFLOW:STARFUSION	8
STARFUSION_WORKFLOW:STARFUSION_FILTER	8
FUSIONREPORT_WORKFLOW:FUSIONREPORT	8
FUSIONINSPECTOR_WORKFLOW:FUSIONINSPECTOR	8
FUSIONINSPECTOR_WORKFLOW:AGAT_CONVERTSPGFF2TSV	8
FUSIONINSPECTOR_WORKFLOW:VCF_COLLECT	8
FUSIONINSPECTOR_WORKFLOW:ARRIBA_VISUALISATION	8
RNAFUSION:CTATSPLICING_STARTOCANCERINTRONS	8
RNAFUSION:CANCER_INTRONS_TO_VCF	8
QC_WORKFLOW:GATK4_MARKDUPLICATES	8
QC_WORKFLOW:PICARD_COLLECTRNASEQMETRICS	8
QC_WORKFLOW:PICARD_COLLECTINSERTSIZEMETRICS	8
BAM_RSEQC:RSEQC_BAMSTAT	8
BAM_RSEQC:RSEQC_INNERDISTANCE	8
BAM_RSEQC:RSEQC_INFEREXPERIMENT	8
BAM_RSEQC:RSEQC_JUNCTIONANNOTATION	8
BAM_RSEQC:RSEQC_JUNCTIONSATURATION	8
BAM_RSEQC:RSEQC_READDISTRIBUTION	8
BAM_RSEQC:RSEQC_READDUPLICATION	8
QC_WORKFLOW:SEQTOOL_QC	8
QC_WORKFLOW:SEQTOOL_WHOLE_BAM_SATURATION	7	1	1
QC_WORKFLOW:SEQTOOL_TO_MULTIQC	8
QC_WORKFLOW:PRESEQ_LCEXTRAP	8
QC_WORKFLOW:PRESEQ_TO_MULTIQC	8
RNA_CONTAMINATION_DETECTION_WORKFLOW:NGSCheckMATE	8
RNA_CONTAMINATION_DETECTION_WORKFLOW:EXTRACT_VAF_FEATURES	8
RNA_CONTAMINATION_DETECTION_WORKFLOW:PREDICT_CONTAMINATION	8
RNAFUSION:CONTAMINATION_TO_MULTIQC	8
RNAFUSION:MULTIQC	1
RNAFUSION:MULTIQC_GENERAL_STATS_TXT_TO_JSON	1
RNAFUSION:MULTIQC_GENERAL_STATS_TXT_TO_TSV	1