Runs
cgp_rna_exp0034_73d51683
Processes
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Processes
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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
52
44
TRIM_WORKFLOW:FASTP
96
TRIM_WORKFLOW:FASTQC_FOR_FASTP
50
46
1
RNAFUSION:KALLISTO_INDEX
1
RNAFUSION:KALLISTO_QUANT
42
54
1
RNAFUSION:KALLISTO_TO_TX2GENE_QC
42
RNAFUSION:KALLISTO_TO_MULTIQC
42
RNAFUSION:GTF2BED
1
FASTQ_ALIGN_STAR:STAR_ALIGNMENT
37
59
2
FASTQ_ALIGN_STAR:SAMTOOLS_INDEX_STAR_ALIGNMENT
35
2
RNAFUSION:SAMTOOLS_VIEW_ALIGNMENT_CRAM
28
7
RNAFUSION:SAMTOOLS_INDEX_ALIGNMENT_CRAM
27
1
ARRIBA_WORKFLOW:ARRIBA
29
8
ARRIBA_WORKFLOW:ARRIBA_FILTER
28
1
STARFUSION_WORKFLOW:STARFUSION
17
20
1
STARFUSION_WORKFLOW:STARFUSION_FILTER
15
2
FUSIONREPORT_WORKFLOW:FUSIONREPORT
13
FUSIONINSPECTOR_WORKFLOW:FUSIONINSPECTOR
1
4
3
FUSIONINSPECTOR_WORKFLOW:AGAT_CONVERTSPGFF2TSV
FUSIONINSPECTOR_WORKFLOW:VCF_COLLECT
FUSIONINSPECTOR_WORKFLOW:ARRIBA_VISUALISATION
RNAFUSION:CTATSPLICING_STARTOCANCERINTRONS
28
7
RNAFUSION:CANCER_INTRONS_TO_VCF
28
QC_WORKFLOW:GATK4_MARKDUPLICATES
8
29
QC_WORKFLOW:PICARD_COLLECTRNASEQMETRICS
QC_WORKFLOW:PICARD_COLLECTINSERTSIZEMETRICS
BAM_RSEQC:RSEQC_BAMSTAT
18
17
1
BAM_RSEQC:RSEQC_INNERDISTANCE
34
1
BAM_RSEQC:RSEQC_INFEREXPERIMENT
34
1
BAM_RSEQC:RSEQC_JUNCTIONANNOTATION
20
15
2
BAM_RSEQC:RSEQC_JUNCTIONSATURATION
21
14
BAM_RSEQC:RSEQC_READDISTRIBUTION
15
20
BAM_RSEQC:RSEQC_READDUPLICATION
14
21
QC_WORKFLOW:SEQTOOL_QC
5
3
QC_WORKFLOW:SEQTOOL_WHOLE_BAM_SATURATION
7
1
QC_WORKFLOW:RSEQC_TO_MULTIQC
16
2
QC_WORKFLOW:SEQTOOL_TO_MULTIQC
5
QC_WORKFLOW:PRESEQ_LCEXTRAP
14
23
QC_WORKFLOW:PRESEQ_TO_MULTIQC
11
3
RNA_CONTAMINATION_DETECTION_WORKFLOW:NGSCheckMATE
21
12
RNA_CONTAMINATION_DETECTION_WORKFLOW:EXTRACT_VAF_FEATURES
21
RNA_CONTAMINATION_DETECTION_WORKFLOW:PREDICT_CONTAMINATION
20
RNAFUSION:CONTAMINATION_SKIPPED_LOW_READS
2
RNAFUSION:CONTAMINATION_TO_MULTIQC
19
RNAFUSION:MULTIQC
RNAFUSION:MULTIQC_GENERAL_STATS_TXT_TO_JSON
RNAFUSION:MULTIQC_GENERAL_STATS_TXT_TO_TSV
RNAFUSION:MULTIQC_EXTRACT_CONTROLS
RNAFUSION:RUN_LEVEL_INTERMEDIATE
RNAFUSION:RUN_LEVEL_METRICS