Sample	bedtools	getchromsizes	python	r-base	bioconductor-deseq2	bioconductor-dupradar	fastqc	fq	rsem	star	picard	qualimap	rseqc	salmon	samtools	bioconductor-summarizedexperiment	gawk	stringtie	trimgalore	cutadapt	pigz	bioconductor-tximeta	ucsc	nf-core/rnaseq	Nextflow
BEDTOOLS_GENOMECOV_FW	2.31.1																								
CUSTOM_GETCHROMSIZES		1.21																							
CUSTOM_TX2GENE			3.10.4																						
DESEQ2_QC_STAR_SALMON				4.0.3	1.28.0																				
DupRadar						1.32.0																			
FASTQC							0.12.1																		
FQ_LINT								0.12.0 (2024-07-08)																	
FQ_SUBSAMPLE								0.12.0 (2024-07-08)																	
GTF_FILTER			3.9.5																						
MAKE_TRANSCRIPTS_FASTA									1.3.1	2.7.10a															
PICARD_MARKDUPLICATES											3.1.1														
QUALIMAP_RNASEQ												2.3													
RSEQC_BAMSTAT													5.0.2												
RSEQC_INFEREXPERIMENT													5.0.2												
RSEQC_INNERDISTANCE													5.0.2												
RSEQC_JUNCTIONANNOTATION													5.0.2												
RSEQC_JUNCTIONSATURATION													5.0.2												
RSEQC_READDISTRIBUTION													5.0.2												
RSEQC_READDUPLICATION													5.0.2												
SALMON_INDEX														1.10.3											
SALMON_QUANT														1.10.3											
SAMTOOLS_FLAGSTAT															1.21										
SAMTOOLS_IDXSTATS															1.21										
SAMTOOLS_INDEX															1.21										
SAMTOOLS_SORT															1.21										
SAMTOOLS_STATS															1.21										
SE_GENE_UNIFIED																1.32.0									
SE_TRANSCRIPT_UNIFIED																1.32.0									
STAR_ALIGN_IGENOMES										2.6.1d					1.1		5.1.0								
STRINGTIE_STRINGTIE																		2.2.3							
TRIMGALORE																			0.6.10	4.9	2.8				
TXIMETA_TXIMPORT																						1.20.1			
UCSC_BEDCLIP																							377		
UCSC_BEDGRAPHTOBIGWIG																							469		
Workflow																								v3.19.0-g0bb032c	25.04.2