Cutevariant: a standalone GUI-based desktop application to explore genetic variations from an annotated VCF file

Sacha Schutz; Charles Monod-Broca; Lucas Bourneuf; Pierre Marijon; Tristan Montier

doi:10.1093/bioadv/vbab028

Cutevariant: a standalone GUI-based desktop application to explore genetic variations from an annotated VCF file

Bioinform Adv. 2021 Nov 25;2(1):vbab028. doi: 10.1093/bioadv/vbab028. eCollection 2022.

Authors

Sacha Schutz^{1

2}, Charles Monod-Broca², Lucas Bourneuf³, Pierre Marijon⁴, Tristan Montier^{1

2}

Affiliations

¹ Univ Brest, Inserm, EFS, UMR 1078, GGB, Brest 29200, France.
² CHRU Brest, Brest 29200, France.
³ Univ Rennes, Inria, CNRS, IRISA-UMR 6074, Rennes F-35000, France.
⁴ Heinrich-Heine-Universität Düsseldorf, Medical Faculty, Institute for Medical Biometry and Bioinformatics, Düsseldorf, Germany.

Abstract

Summary: Cutevariant is a graphical user interface (GUI)-based desktop application designed to filter variations from annotated VCF file. The application imports data into a local SQLite database where complex filter queries can be built either from GUI controllers or using a domain-specific language called Variant Query Language. Cutevariant provides more features than existing applications and is fully customizable thanks to a complete plugins architecture.

Availability and implementation: Cutevariant is distributed as a multiplatform client-side software under an open source license and is available at https://github.com/labsquare/cutevariant.