As adoption of nanopore sequencing technology continues to advance, the need to maintain large volumes of raw current signal data for reanalysis with updated algorithms is a growing challenge. Here we introduce slow5curl, a software package designed to streamline nanopore data sharing, accessibility and reanalysis.
Slow5curl allows a user to fetch a specified read or group of reads from a raw nanopore dataset stored on a remote server, such as a public data repository, without downloading the entire file.
Slow5curl uses an index to quickly fetch specific reads from a large dataset in SLOW5/BLOW5 format and highly parallelised data access requests to maximise download speeds. Using all public nanopore data from the Human Pangenome Reference Consortium (>22 TB), we demonstrate how
Slow5curl can be used to quickly fetch and reanalyse raw signal reads corresponding to a set of target genes from each individual in large cohort dataset (
n = 91), minimising the time, egress costs, and local storage requirements for their reanalysis. We provide
Slow5curl as a free, open-source package that will reduce frictions in data sharing for the nanopore community.
