AirLift is the first read remapping tool that enables users to quickly and comprehensively map a read set, that had been previously mapped to one reference genome, to another similar reference. Users can then quickly run a downstream analysis of read sets for each latest reference release. Compared to the state-of-the-art method for remapping reads (i.e., full mapping), AirLift reduces the overall execution time to remap read sets between two reference genome versions by up to 27.4x. We validate our remapping results with GATK and find that AirLift provides high accuracy in identifying ground truth SNP/INDEL variants AirLift source code and readme describing how to reproduce our results are available at https://github.com/CMU-SAFARI/AirLift.
@article{arxiv.1912.08735,
title = {AirLift: A Fast and Comprehensive Technique for Remapping Alignments between Reference Genomes},
author = {Jeremie S. Kim and Can Firtina and Meryem Banu Cavlak and Damla Senol Cali and Mohammed Alser and Nastaran Hajinazar and Can Alkan and Onur Mutlu},
journal= {arXiv preprint arXiv:1912.08735},
year = {2026}
}
Comments
Published in the IEEE/ACM TCBB journal: https://ieeexplore.ieee.org/document/10638724