This software allows us to create a relational database in PostgreSQL hosting full bacterial genomes. Besides the database, there is software, like a parser, to convert EMBL or GBK files to the CpDB relational schema. Once in the CpDB, one can extract unlimited reports from bacterial genomes using SQL. This software is part of the Ph.D. in Bioinformatics from Anderson Santos (https://orcid.org/0000-0003-3418-0823) developed under the Corynebacterium pseudotuberculosis (Cp) pangenome project. The Cp pangenome delivered to the scientific community fifteen bacterial strains deposited at the GenBank database between the years of 2009 and 2012. The thesis was written in Brazilian Portuguese. However, an English book chapter explaining the software is available at this address: https://doi.org/10.5772/23724. CpDB is the backbone for the Pannotator software: https://pannotator.facom.ufu.br. Both software still is alive and kicking.
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Compilers, Bio-Informatics

License

GNU General Public License version 3.0 (GPLv3)

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  • nathanfernandez Posted 2013-06-01
    Cpdb is perfect! Thanks.
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Additional Project Details

Operating Systems

Linux

Intended Audience

Science/Research

Programming Language

C, PL/SQL

Database Environment

PostgreSQL (pgsql)

Related Categories

C Compilers, C Bio-Informatics Software, PL/SQL Compilers, PL/SQL Bio-Informatics Software

Registered

2012-01-31
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