Testing CERN ROOT RNTuple for genomic data - need review

technical question

Hi r/bioinformatics,

I'm a student working on migrating genomic alignments to ROOT's(CERNs data storage) RNTuple format. Built a SAM converter and region query tool, would be grateful for your review.

GitHub: https://github.com/compiler-research/ramtools

Need feedback on:

  • Does it handle your SAM files correctly?
  • What BAM features are must-haves?
  • What should I add to make it actually useful?

I wanted to make something which bridge the drawbacks of other formats(CRAM/BAM) and would be useful for the community.This is built on the previous TTree format work(https://github.com/GeneROOT/ramtools).
I have updated the readme section with all the performance improvements we have got.

Thanks!

Posted Nov 3, 2025, 9:07 PM UTC

22
Loading comments…