SquiDBase: a community resource of raw nanopore data from microbes.

ABSTRACT: Nucleotide sequences in the FASTQ or BAM format are widely shared, yet derived from platform-specific raw data outputs that differ across sequencing platforms. In Oxford Nanopore Technologies (ONT) sequencing, raw signal data contain valuable biological information and enable basecaller optimization and modification detection. These raw signals also underpin algorithms that could improve ONT device portability and enhance target enrichment efficiency through adaptive sampling. Nevertheless, the storage and sharing of raw nanopore data remain limited due to technical constraints and the lack of standardized and centralized infrastructure. To address this challenge, we developed SquiDBase (https://squidbase.org), a dedicated repository for raw microbial nanopore sequencing data with linked p

SUBMITTER: Cuypers WL 

PROVIDER: S-EPMC12783041 | biostudies-literature | 2026 Mar

REPOSITORIES: biostudies-literature