Calculate inner distance between read pairs.
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}
distance
meta:file
the inner distances
*.inner_distance.txt
*distance.txt:file
freq
frequencies of different insert sizes
*.inner_distance_freq.txt
*freq.txt:file
mean
mean/median values of inner distances
*.inner_distance_mean.txt
*mean.txt:file
pdf
distribution plot of inner distances
*.inner_distance_plot.pdf
*.pdf:file
rscript
script to reproduce the plot
*.inner_distance_plot.R
*.r: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.
