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CONTIGuator

Designed for the bacterial genomes finishing process. CONTIGuator is a software that combines the routines of ABACAS with a contig profiling viewable with the Artemis comparison tool. The software provides Polymerase Chain Reaction (PCR) primers set to close more gaps and gives clues on the relative position of various contigs. Contigs profiling provides a high-resolution map, highlighting regions of the reference genomes that are diverging from assembled contigs. CONTIGuator allows investigation of the structural genomics based on draft genome sequences.

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CONTIGuator classification

CONTIGuator specifications

Software type:
Application/Script, Package/Module
Restrictions to use:
None
Programming languages:
Python
Version:
2.7
Requirements:
BioPython, Blast+, Perl (optional), ABACAS (optional), MUMmer (optional), Primer3
Interface:
Command line interface
Operating system:
Unix/Linux
Computer skills:
Advanced
Stability:
Stable
Maintained:
No

CONTIGuator distribution

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No open topic.

CONTIGuator classification

CONTIGuator specifications

Software type:
Application/Script, Package/Module
Restrictions to use:
None
Programming languages:
Python, Python
Computer skills:
Basic
Maintained:
No
Interface:
Command line interface, Web user interface
Operating system:
Unix/Linux
License:
BSD 3-clause “New” or “Revised” License
Stability:
Stable

CONTIGuator support

Documentation

Maintainers

This tool is not available anymore.

Additional information

Web app: http://combo.dbe.unifi.it/contiguator

Credits

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Publications

Institution(s)

Department of Evolutionary Biology, University of Firenze, Firenze, Italy; Interdisciplinary Research Institute USR3078 – CNRS University of Lille 1 - Université de Lille 2, Villenenuve d’Ascq, France

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