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Project #7427
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#7427 : Add unit tests to IntegronFinder
Topics :
Organisms :
Group :
Name of Applicant : Eduardo Rocha
Date of application : 22-11-2016
Unit : Microbial Evolutionary Genomics
Location : Bat FJ – 6th floor
Phone : 01 40 61 33 53
@ Mail : erocha@pasteur.fr

Project context and summary :

Integrons drive the spread of antibiotic resistance genes in bacterial populations. While their role is widely known (integron+antibiotic+resistance in PubMed gives > 1700 hits), there was no software available to identify integrons and their different components. We have made integronFinder (with Bertrand Néron) for this (Cury, NAR, 16). We would like to make improvements to IntegronFinder:

  • Unit tests to facilitate the development of the tool. Especially since Jean Cury (the main author) will leave the lab in the summer of 2017.
  • Add the possibility of using multi-fasta as input.


Related team publications :
Cury J, Jové T, Touchon M, Néron B, Rocha EPC (2016). Identification and analysis of integrons and cassette arrays in bacterial genomes. Nucleic Acids Res. 44:4539-50
Service Delivery
Project Manager : bertrand.neron@pasteur.fr
Project Type : Short
Status : In Progress


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