Processes

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