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          Institute: MPI für Entwicklungsbiologie     Collection: Abteilungsunabhängige Arbeitsgruppen     Display Documents



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ID: 226079.0, MPI für Entwicklungsbiologie / Abteilungsunabhängige Arbeitsgruppen
BACCardI--a tool for the validation of genomic assemblies, assisting genome finishing and intergenome comparison.
Authors:Bartels, D.; Kespohl, S.; Albaum, S.; Druke, T.; Goesmann, A.; Herold, J.; Kaiser, O.; Puhler, A.; Pfeiffer, F.; Raddatz, Günter; Stoye, J.; Meyer, F.; Schuster, Stephan
Language:English
Date of Publication (YYYY-MM-DD):2005-04-01
Title of Journal:Bioinformatics
Volume:21
Issue / Number:7
Start Page:853
End Page:859
Sequence Number of Article:15514001
Review Status:not specified
Audience:Not Specified
Abstract / Description:SUMMARY: We provide the graphical tool BACCardI for the construction of virtual clone maps from standard assembler output files or BLAST based sequence comparisons. This new tool has been applied to numerous genome projects to solve various problems including (a) validation of whole genome shotgun assemblies, (b) support for contig ordering in the finishing phase of a genome project, and (c) intergenome comparison between related strains when only one of the strains has been sequenced and a large insert library is available for the other. The BACCardI software can seamlessly interact with various sequence assembly packages. MOTIVATION: Genomic assemblies generated from sequence information need to be validated by independent methods such as physical maps. The time-consuming task of building physical maps can be circumvented by virtual clone maps derived from read pair information of large insert libraries.
External Publication Status:published
Document Type:Article
Affiliations:MPI für Entwicklungsbiologie/Abteilungsunabhängige Arbeitsgruppen
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