Bioinformatics platform of Versailles

The “Unité de Recherches en Génomique Info” (URGI, UR1164) is an INRA research unit from the plant breeding department.

interface development (Java J2EE)
development of pipelines (Python)
databases (PostgreSQL, MySQL)
NoSQL technologies (ElasticSearch, SolR)
data integration (ETL Talend) in fields as diverse as genomics and genetics (genome annotation, RNA-Seq, polymorphism, association genetics, phenotype, genetic resources)
genome analysis (structure and dynamics)
- Analysis of polymorphism (SNP, structural variants)
- RNA-Seq
- gene annotation (structural and functional)
- annotation of repeats

a computing cluster: 888 cores
6 dedicated servers (Web, databases: (PostGreSQL, MySQL), development of the GnpIS information system, NFS for disk management, backup management, virtual machines)
a server area with air conditioning and fire safety (UPS), storage units (NAS, DAS), backup robots, connectivity to the Internet network: 1 Gb/sec.

GnpIS : an information system for the genetics and genomics of plants and fungi.
REPET : detection, classification and annotation package for repeats (Transposable element, satellites...) https://urgi.versailles.inra.fr/Tools/REPET
S-MART : Toolbox for handling NGS data, especially RNA-Seq, ChiP-Seq data https://urgi.versailles.inra.fr/Tools/S-Mart
URGI Galaxy Portal : Online tool server, some of which were developed at URGI.
- tools from the S-Mart toolbox - https://urgi.versailles.inra.fr/Tools/Galaxy
- Workflows for differential expression analysis (RNA-seq) or polymorphism analysis (SNP, structural variants)