BACCardI -: a tool for the validation of genomic assemblies, assisting genome finishing and intergenome comparison

被引：29

作者：

Bartels, D

Kespohl, S

Albaum, S

Drüke, T

Goesmann, A

Herold, J

Kaiser, O

Pühler, A

Pfeiffer, F

Raddatz, G

Stoye, J

Meyer, F ^{[1
]}

Schuster, SC

机构：

[1] Univ Bielefeld, Ctr Biotechnol CeBiTec, D-33594 Bielefeld, Germany

[2] Univ Bielefeld, Lehrstuhl Genet, Fak Biol, D-33594 Bielefeld, Germany

[3] Max Planck Inst Biochem, Abt Membranbiochem, D-82152 Martinsried, Germany

[4] Max Planck Inst Entwicklungsbiol, D-72076 Tubingen, Germany

[5] Univ Bielefeld, Tech Fak, D-33594 Bielefeld, Germany

来源：

BIOINFORMATICS | 2005年 / 21卷 / 07期

关键词：

D O I：

10.1093/bioinformatics/bti091

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

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.

引用

页码：853 / 859

页数：7

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