BaseLess: lightweight detection of sequences in raw MinION data.

ABSTRACT:

Summary

With its candybar form factor and low initial investment cost, the MinION brought affordable portable nucleic acid analysis within reach. However, translating the electrical signal it outputs into a sequence of bases still requires mid-tier computer hardware, which remains a caveat when aiming for deployment of many devices at once or usage in remote areas. For applications focusing on detection of a target sequence, such as infectious disease monitoring or species identification, the computational cost of analysis may be reduced by directly detecting the target sequence in the electrical signal instead. Here, we present baseLess, a computational tool that enables such target-detection-only analysis. BaseLess makes use of an array of small neural networks, each of which eff

SUBMITTER: Noordijk B 

PROVIDER: S-EPMC9936955 | biostudies-literature | 2023

REPOSITORIES: biostudies-literature