I'm currently running kissplice2reftranscriptome to predict the impact of SNPs using paired-end reads from 4 samples (8 reads files total, ~45 million bp per file, ~14 gigabytes per file). My 'mergeSNPs.tsv' file is currently ~ 25 megabytes after 24 hrs.
What length of runtime should I be expecting? KisSplice took between 3-4 days to run.
Any info would be great. I feel like I may in for the long-haul! Thanks.