Gigwa - Genotype Investigator for Genome-Wide Analyses. [P0442]

Ruiz Manuel, Sempere Guilhem, Petel Adrien, Dereeper Alexis, Gautier Sarah, Larmande Pierre. 2017. Gigwa - Genotype Investigator for Genome-Wide Analyses. [P0442]. In : Proceedings Plant and Animal Genome XXV Conference. San Diego : PAG, 1 p. Plant and Animal Genome Conference. 25, San Diego, États-Unis, 14 Janvier 2017/18 Janvier 2017.

Résumé : Exploring the structure of genomes and analyzing their evolution is essential to understanding the ecological adaptation of organisms. However, with the large amounts of data being produced by next-generation sequencing, computational challenges arise in terms of storage, search, sharing, analysis and visualization. This is particularly true with regards to studies of genomic variation, which are currently lacking scalable and user-friendly data exploration solutions. Here we present Gigwa, a web-based tool that provides an easy and intuitive way to explore large amounts of genotyping data by filtering it not only on the basis of variant features, including functional annotations, but also on genotype patterns. The data storage relies on MongoDB, which offers good scalability properties. Gigwa can handle multiple databases and may be deployed in either single- or multi-user mode. In addition, it provides a wide range of popular export formats. The Gigwa application is suitable for managing large amounts of genomic variation data. Its user-friendly web interface makes such processing widely accessible. It can either be simply deployed on a workstation or be used to provide a shared data portal for a given community of researchers. (Texte integral)

Classification Agris : F30 - Génétique et amélioration des plantes
L10 - Génétique et amélioration des animaux
C30 - Documentation et information

Auteurs et affiliations

• Ruiz Manuel, CIRAD-BIOS-UMR AGAP (COL) ORCID: 0000-0001-8153-276X
• Sempere Guilhem, CIRAD-BIOS-UMR INTERTRYP (FRA) ORCID: 0000-0001-7429-2091
• Petel Adrien, CIRAD-BIOS-UMR PVBMT (REU)
• Dereeper Alexis, IRD (FRA)
• Gautier Sarah, INRA (FRA)
• Larmande Pierre, IRD (FRA)

Source : Cirad-Agritrop (https://agritrop.cirad.fr/583457/)

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