compare detected splice junctions to reference gene model
meta:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end
bam:file
the alignment in bam format
*.{bam}
bed:file
a bed file for the reference gene model
*.{bed}
xls
meta:file
xls file with junction information
*.xls
*.xls:file
rscript
Rscript to reproduce the plots
*.r
*.r:file
log
Log file of execution
*.junction_annotation.log
*.log:file
bed
bed file of annotated junctions
*.junction.bed
*.junction.bed:file
interact_bed
Interact bed file
*.Interact.bed
*.Interact.bed:file
pdf
junction plot
*.junction.pdf
*junction.pdf:file
events_pdf
events plot
*.events.pdf
*events.pdf:file
versions
versions.yml:file
File containing software versions
versions.yml
RSeQC package provides a number of useful modules that can comprehensively evaluate high throughput sequence data especially RNA-seq data.
