Hi,
I’m currently using the HiCUP pipeline to analyze a dataset from GEO, with a total data size of 50.9 GB for both forward and reverse reads. I understand that Hi-C data typically takes longer to process than standard NGS data, but the pipeline has been running for nearly two days now.
Is this runtime typical for Hi-C analysis of this size? What is the average runtime for the HiCUP pipeline in general?
This is my first time working with Hi-C data, so I’m not entirely sure what to expect or what key factors I should be paying attention to. Also, are there any other recommended tools available on UseGalaxy for Hi-C analysis?
Thank you!