compare detected splice junctions to reference gene model
meta
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
bam
:file
the alignment in bam format
*.{bam}
bai
BAM index file
*.{bai}
bed
a bed file for the reference gene model
*.{bed}
xls
xls file with junction information
*.xls
rscript
*.r
Rscript to reproduce the plots
log
*.log
Log file of execution
*.junction_annotation.log
*.junction.bed
bed file of annotated junctions
interact_bed
*.Interact.bed
Interact bed file
pdf
*junction.pdf
junction plot
*.junction.pdf
events_pdf
*events.pdf
events plot
*.events.pdf
versions_rseqc
${task.process}
:string
The process the versions were collected from
rseqc
The tool name
junction_annotation.py --version | sed "s/junction_annotation.py //"
:eval
The expression to obtain the version of the tool
versions
The expression to obtain the version of the tool of the tool
RSeQC package provides a number of useful modules that can comprehensively evaluate high throughput sequence data especially RNA-seq data.
