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CpDB

Relational database schema and tools for bacterial genome annotation

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Description

This software allows us to create a relational database in Postgres to host full bacterial genomes. Besides the database, also there are software tools, like a parser, to convert EMBL or GBK files to the CpDB relational schema. Once in the CpDB, one can extract unlimited reports from a bacterial genome using SQL. This software is part of the Ph.D. in Bioinformatics from Anderson Santos and was developed under the Corynebacterium pseudotuberculosis (Cp) pangenome project. The Cp pangenome delivered to the scientific community 15 bacterial strains deposited at the GenBank database, between the years of 2009 and 2012. The full thesis was written in Portuguese-br. A book chapter explaining in English why and what for this software is available from the address: http://www.intechopen.com/articles/show/title/whole-genome-annotation-in-silico-analysis. CpDB also was the backbone for the Pannotator tool: http://pannotator.facom.ufu.br
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    Cpdb is perfect! Thanks.

    Posted 06/01/2013
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Additional Project Details

Intended Audience

Science/Research

Programming Language

C, PL/SQL

Registered

2012-01-31

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