title: BACCardI--a tool for the validation of genomic assemblies, assisting genome finishing and intergenome comparison.
abstract: CONCLUSIONS
  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.
  
  
  BACKGROUND
  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.
authors.affiliation: Universität Bielefeld, Center for Biotechnology (CeBiTec) D-33594 Bielefeld, Germany.
authors.forename: Daniela
authors.initials: D
authors.lastname: Bartels
authors.forename: Sebastian
authors.initials: S
authors.lastname: Kespohl
authors.forename: Stefan
authors.initials: S
authors.lastname: Albaum
authors.forename: Tanja
authors.initials: T
authors.lastname: Drüke
authors.forename: Alexander
authors.initials: A
authors.lastname: Goesmann
authors.forename: Julia
authors.initials: J
authors.lastname: Herold
authors.forename: Olaf
authors.initials: O
authors.lastname: Kaiser
authors.forename: Alfred
authors.initials: A
authors.lastname: Pühler
authors.forename: Friedhelm
authors.initials: F
authors.lastname: Pfeiffer
authors.forename: Günter
authors.initials: G
authors.lastname: Raddatz
authors.forename: Jens
authors.initials: J
authors.lastname: Stoye
authors.forename: Folker
authors.initials: F
authors.lastname: Meyer
authors.forename: Stephan C
authors.initials: SC
authors.lastname: Schuster
mesh_terms: D000465:Algorithms; D001483:Base Sequence; D019985:Benchmarking / Q000379:methods; D002874:Chromosome Mapping / Q000379:methods*; D003196:Computer Graphics; D008969:Molecular Sequence Data; D016415:Sequence Alignment / Q000379:methods*; D017422:Sequence Analysis, DNA / Q000379:methods*; D012984:Software; D014584:User-Computer Interface