BACCardI - a tool for the validation of genomic assemblies, assisting genome finishing and intergenome comparison
Bartels, Daniela ; Kespohl, Sebastian ; Albaum, Stefan ; Drüke, Tanja ; Goesmann, Alexander ; Herold, Julia ; Kaiser, Olaf ; Pühler, Alfred ; Pfeiffer, Friedhelm ; Raddatz, Günter ; Stoye, Jens ; Meyer, Folker ; Schuster, Stephan C.In: Bioinformatics, Vol. 21 Issue 7, page 853-8592005On Common Intervals with Errors
Chauve, Cedric ; Diekmann, Yoan ; Heber, Steffen ; Mixtacki, Julia ; Rahmann, Sven ; Stoye, Jens2006Genomic distance under gene substitutions
Dias Vieira Braga, Marília ; Machado, Raphael ; Ribeiro, Leonardo C. ; Stoye, JensIn: BMC Bioinformatics, Vol. 12 Issue Suppl 9: Proc. of RECOMB-CG 20112011On the weight of indels in genomic distances
Dias Vieira Braga, Marília ; Machado, Raphael ; Ribeiro, Leonardo C. ; Stoye, JensIn: BMC Bioinformatics, Vol. 12 Issue Suppl 9: RECOMB-CG 20112011Generic Software Frameworks for GC-MS Based Metabolomics
Hoffmann, Nils ; Stoye, Jens ; Roessner, Ute (Ed.)2012Phylogenetic classification of short environmental DNA fragments
Krause, Lutz ; Diaz, Naryttza N. ; Goesmann, Alexander ; Kelley, Scott ; Nattkemper, Tim Wilhelm ; Rohwer, Forest ; Edwards, Robert A. ; Stoye, JensIn: Nucleic Acids Research, Vol. 36 Issue 7, page 2230-22392008Approximating the DCJ distance of balanced genomes in linear time
Rubert, Diego ; Feijão, Pedro ; Dias Vieira Braga, Marília ; Stoye, Jens ; Martinez, Fábio Henrique ViduaniIn: Algorithms for Molecular Biology, Vol. 12 Issue 12017Computing the family-free DCJ similarity
Rubert, Diego ; Hoshino, Edna A. ; Dias Vieira Braga, Marília ; Stoye, Jens ; Martinez, Fábio Henrique ViduaniIn: BMC Bioinformatics, Vol. 19 Issue Suppl. 62018Analysis of local genome rearrangement improves resolution of ancestral genomic maps in plants
Rubert, Diego ; Martinez, Fábio Henrique Viduani ; Stoye, Jens ; Dörr, DanielIn: BMC Genomics, Vol. 21 Issue Suppl. 22020QAlign: quality-based multiple alignments with dynamic phylogenetic analysis
Sammeth, Michael ; Rothgänger, Jörg ; Esser, Wolfram ; Albert, Jürgen ; Stoye, Jens ; Harmsen, DagIn: BIOINFORMATICS, Vol. 19 Issue 12, page 1592-15932003Detecting High Scoring Local Alignments in Pangenome Graphs
Schulz, Tizian ; Wittler, Roland ; Rahmann, Sven ; Hach, Faraz ; Stoye, JensIn: Bioinformatics, Vol. 37 Issue 16, page 2266-22742021The complete genome sequence of the acarbose producer Actinoplanes sp. SE50/110
Schwientek, Patrick ; Szczepanowski, Rafael ; Rückert, Christian ; Kalinowski, Jörn ; Klein, Andreas ; Selber, Klaus ; Wehmeier, Udo F. ; Stoye, Jens ; Pühler, AlfredIn: BMC Genomics, Vol. 13 Issue 12012A novel approach to remote homology detection: jumping alignments
Spang, Rainer ; Rehmsmeier, Marc ; Stoye, JensIn: Journal of Computational Biology, Vol. 9 Issue 5, page 747-7602002