SPEAR: Systematic ProtEin AnnotatoR

Crown, Matthew, Teruel, Natalia, Najmanovich, Rafael and Bashton, Matthew (2022) SPEAR: Systematic ProtEin AnnotatoR. Bioinformatics. btac391. ISSN 1367-4803 (In Press)

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Official URL: https://doi.org/10.1093/bioinformatics/btac391

Abstract

Summary
We present SPEAR, a lightweight and rapid SARS-CoV-2 variant annotation and scoring tool, for identifying mutations contributing to potential immune escape and transmissibility (ACE2 binding) at point of sequencing. SPEAR can be used in the field to evaluate genomic surveillance results in real-time and features a powerful interactive data visualisation report.

Availability and implementation
SPEAR and documentation are freely available on GitHub: https://github.com/m-crown/SPEAR and is implemented in Python and installable via Conda environment.

Supplemental
Supplementary data are available at Bioinformatics online.

Item Type: Article
Additional Information: Funding information: MB and MC are funded by Research England’s Expanding Excellence in England (E3) Fund. MB is funded by the UK Health Security Agency. This work is supported by COG-UK. RJN a member of the Réseau Québécois de Recherche sur les Médicaments (RQRM) and the Quebec Network for Research on Protein Function, Engineering and Applications (PROTEO).
Subjects: A300 Clinical Medicine
B800 Medical Technology
C900 Others in Biological Sciences
Department: Faculties > Health and Life Sciences > Applied Sciences
Depositing User: Rachel Branson
Date Deposited: 09 Jun 2022 12:38
Last Modified: 27 Jun 2022 14:45
URI: http://nrl.northumbria.ac.uk/id/eprint/49276

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