Questions

[rabiafidan]

Hi! Thank you for the workflow!

Do you have a flowchart diagram of the workflow steps?

I am dealing with processing massive files with a limited space. Is it possible to delete intermediate files between FASTQ & the final CRAM on the go? I can go to Snakefile and mark every output as temp, I guess, but this only works if there are no "untracked" output files, i.e. cases like there are 2 output files from a tool but you only included one of them in the output directive ...