When using an external junction reads file with --junction-reads-csv, then the original file is still wherever else in the filesystem it is, and since storage is cheap and to be consistent with the other implementations, this file should be copied over to outrigger_output/junctions/reads.csv
For example, I'm running outrigger now and have this folder as my output so far:
Description
When using an external junction reads file with
--junction-reads-csv
, then the original file is still wherever else in the filesystem it is, and since storage is cheap and to be consistent with the other implementations, this file should be copied over tooutrigger_output/junctions/reads.csv
For example, I'm running
outrigger
now and have this folder as my output so far:But now I have to go back and hunt down which were the actual reads that were used in this analysis.