PUB - Publikationen an der Universität Bielefeld

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• [31]
  

  2023 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2983072

  Wittler, R.: General encoding of canonical k-mers. Peer Community Journal. 3, : e87 (2023).

  PUB | DOI | Preprint
   
• [30]
  

  2022 | Preprint | Veröffentlicht | PUB-ID: 2967089

  Parmigiani, L., Wittler, R., Stoye, J.: Revisiting pangenome openness with k-mers. bioRxiv. (2022).

  PUB | DOI
   
• [29]
  

  2022 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2963659

  Schulz, T., Wittler, R., Stoye, J.: Sequence-based pangenomic core detection. iScience. 25, : 104413 (2022).

  PUB | PDF | DOI | Download (ext.) | WoS | PubMed | Europe PMC
   
• [28]
  

  2021 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2955595

  Rempel, A., Wittler, R.: SANS serif: alignment-free, whole-genome based phylogenetic reconstruction. Bioinformatics. 37, 4868–4870 (2021).

  PUB | DOI | Download (ext.) | WoS | PubMed | Europe PMC | Preprint
   
• [27]
  

  2021 | Herausgeber*in Sammelwerk | Veröffentlicht | PUB-ID: 2959449

  Stoye, J., Wittler, R. eds: The Bielefeld Institute for Bioinformatics Infrastructure. Universität Bielefeld, Techn. Fakultät, Bielefeld (2021).

  PUB | PDF | DOI
   
• [26]
  

  2021 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2950825

  Schulz, T., Wittler, R., Rahmann, S., Hach, F., Stoye, J.: Detecting High Scoring Local Alignments in Pangenome Graphs. Bioinformatics. 37, 2266-2274 (2021).

  PUB | PDF | DOI | WoS | PubMed | Europe PMC
   
• [25]
  

  2020 | Preprint | Veröffentlicht | PUB-ID: 2945720

  Schulz, T., Wittler, R., Rahmann, S., Hach, F., Stoye, J.: Detecting High Scoring Local Alignments in Pangenome Graphs. bioRxiv. (2020).

  PUB | DOI | Preprint
   
• [24]
  

  2020 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2942421

  Wittler, R.: Alignment- and reference-free phylogenomics with colored de Bruijn graphs. Algorithms for Molecular Biology. 15, : 4 (2020).

  PUB | PDF | DOI | WoS | PubMed | Europe PMC | arXiv
   
• [23]
  

  2019 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2908574

  Luhmann, N., Lafond, M., Thévenin, A., Ouangraoua, A., Wittler, R., Chauve, C.: The SCJ Small Parsimony Problem for Weighted Gene Adjacencies. IEEE/ACM Transactions on Computational Biology and Bioinformatics. 16, 1364-1373 (2019).

  PUB | DOI | WoS | PubMed | Europe PMC
   
• [22]
  

  2019 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2936900

  Wittler, R.: Alignment- and reference-free phylogenomics with colored de Bruijn graphs. In: Huber, K. and Gusfield, D. (eds.) Proceedings of WABI 2019. LIPIcs. 143, Schloss Dagstuhl--Leibniz-Zentrum fuer Informatik, Dagstuhl, Germany (2019).

  PUB | DOI | Download (ext.)
   
• [21]
  

  2019 | Preprint | PUB-ID: 2935604

  Wittler, R.: Alignment- and reference-free phylogenomics with colored de-Bruijn graphs. arXiv:1905.04165. (2019).

  PUB | PDF
   
• [20]
  

  2018 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2930268

  Holley, G., Wittler, R., Stoye, J., Hach, F.: Dynamic Alignment-Free and Reference-Free Read Compression. JOURNAL OF COMPUTATIONAL BIOLOGY. 25, 825-836 (2018).

  PUB | DOI | WoS | PubMed | Europe PMC
   
• [19]
  

  2018 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2918481

  Luhmann, N., Chauve, C., Stoye, J., Wittler, R.: Scaffolding of Ancient Contigs and Ancestral Reconstruction in a Phylogenetic Framework. IEEE/ACM Transactions on Computational Biology and Bioinformatics. 15, 2094-2100 (2018).

  PUB | DOI | WoS | PubMed | Europe PMC
   
• [18]
  

  2017 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2909409

  Cunha, L., Dantas, S., Gagie, T., Wittler, R., Kowada, L., Stoye, J.: Fast and Simple Jumbled Indexing for Binary Run-Length Encoded Strings. Proceedings of CPM 2017. LIPIcs. 78, p. 19:1-19:9. (2017).

  PUB | DOI
   
• [17]
  

  2017 | Preprint | Veröffentlicht | PUB-ID: 2908521

  Cunha, L., Dantas, S., Gagie, T., Wittler, R., Kowada, L., Stoye, J.: Faster Jumbled Indexing for Binary Run-Length Encoded Strings. arXiv: 1702.01280. (2017).

  PUB | Download (ext.) | arXiv
   
• [16]
  

  2017 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2907587

  Holley, G., Wittler, R., Stoye, J., Hach, F.: Dynamic Alignment-Free and Reference-Free Read Compression. Proceedings of RECOMB 2017. Lecture Notes in Bioinformatics. 10229, p. 50-65. (2017).

  PUB | DOI
   
• [15]
  

  2016 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2900129

  Holley, G., Wittler, R., Stoye, J.: Bloom Filter Trie: an alignment-free and reference-free data structure for pan-genome storage. Algorithms for Molecular Biology. 11, : 3 (2016).

  PUB | PDF | DOI | WoS | PubMed | Europe PMC
   
• [14]
  

  2016 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2901740

  Luhmann, N., Thévenin, A., Ouangraoua, A., Wittler, R., Chauve, C.: The SCJ small parsimony problem for weighted gene adjacencies. Proceedings 12th International Symposium, ISBRA 2016. Lecture Notes in Computer Science. 9683, p. 200-210. Springer International Publishing (2016).

  PUB | DOI | Download (ext.) | arXiv
   
• [13]
  

  2015 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2757497

  Holley, G., Wittler, R., Stoye, J.: Bloom Filter Trie - a data structure for pan-genome storage. In: Pop, M. and Touzet, H. (eds.) Algorithms in Bioinformatics. WABI 2015. Proceedings. Lecture Notes in Computer Science . 9289, p. 217-230. Springer, Berlin, Heidelberg (2015).

  PUB | DOI
   
• [12]
  

  2015 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2764612

  Wittler, R., Marschall, T., Schönhuth, A., Makinen, V.: Repeat- and error-aware comparison of deletions. Bioinformatics. 31, 2947-2954 (2015).

  PUB | PDF | DOI | WoS | PubMed | Europe PMC
   
• [11]
  

  2014 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2690122

  Luhmann, N., Chauve, C., Stoye, J., Wittler, R.: Scaffolding of Ancient Contigs and Ancestral Reconstruction in a Phylogenetic Framework. In: Sérgio, C. (ed.) Proc. of BSB 2014. LNBI. 8826, p. 135-143. Springer Verlag (2014).

  PUB | DOI
   
• [10]
  

  2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2942198

  Wittler, R.: Correction: Unraveling overlapping deletions by agglomerative clustering. BMC Genomics. 14, : S16 (2013).

  PUB | DOI
   
• [9]
  

  2013 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2552092

  Wittler, R.: Unraveling overlapping deletions by agglomerative clustering. BMC Genomics. 14, : S12 (2013).

  PUB | Dateien verfügbar | DOI | WoS | PubMed | Europe PMC
   
• [8]
  

  2013 | Sammelwerksbeitrag | Veröffentlicht | PUB-ID: 2611648

  Dias Vieira Braga, M., Chauve, C., Dörr, D., Jahn, K., Stoye, J., Thévenin, A., Wittler, R.: The Potential of Family-Free Genome Comparison. In: Chauve, C., El-Mabrouk, N., and Tannier, E. (eds.) Models and Algorithms for Genome Evolution. Computational Biology Series. 19, p. 287-307. Springer Verlag, London (2013).

  PUB | DOI
   
• [7]
  

  2012 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2553300

  Manuch, J., Patterson, M., Wittler, R., Chauve, C., Tannier, E.: Linearization of ancestral multichromosomal genomes. BMC Bioinformatics. 13, : S11 (2012).

  PUB | DOI | WoS | PubMed | Europe PMC
   
• [6]
  

  2011 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2329973

  Wittler, R., Chauve, C.: Consistency-based detection of potential tumor-specific deletions in matched normal/tumor genomes. BMC Bioinformatics. 12, S21 (2011).

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• [5]
  

  2011 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 2310613

  Chauve, C., Maňuch, J., Patterson, M., Wittler, R.: Tractability results for the Consecutive-Ones Property with multiplicity. Proceedings of CPM 2011. 6661, p. 90-103. (2011).

  PUB | DOI | Download (ext.)
   
• [4]
  

  2011 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 2091787

  Wittler, R., Maňuch, J., Patterson, M., Stoye, J.: Consistency of Sequence-Based Gene Clusters. Journal of Computational Biology. 18, 1023-1039 (2011).

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• [3]
  

  2010 | Bielefelder E-Dissertation | PUB-ID: 2301939

  Wittler, R.: Phylogeny-based analysis of gene clusters. Bielefeld University, Bielefeld (Germany) (2010).

  PUB | PDF | Download (ext.)
   
• [2]
  

  2010 | Konferenzbeitrag | Veröffentlicht | PUB-ID: 1919217

  Wittler, R., Stoye, J.: Consistency of Sequence-based Gene Clusters. Proc. of Recomb-CG 2010. LNBI. 6398, p. 252-263. Springer Verlag (2010).

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• [1]
  

  2009 | Zeitschriftenaufsatz | Veröffentlicht | PUB-ID: 1591507

  Stoye, J., Wittler, R.: A Unified Approach for Reconstructing Ancient Gene Clusters. IEEE/ACM Transactions on Computational Biology and Bioinformatics. 6, 387-400 (2009).

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