WABI 2018 August 20-22, 2018 - Helsinki, Finland

18th International Workshop on Algorithms in Bioinformatics (WABI 2018)



Laxmi Parida and Esko Ukkonen (Eds.)
ISBN 978-3-95977-082-8, LIPICS Vol. 113 ISSN 1868-8969
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Authors
  • Allen, Chabrielle
  • Alzamel, Mai
  • Ayad, Lorraine A. K.
  • Basu, Saugata
  • Benedict, Travis
  • Berger, Bonnie
  • Bernardini, Giulia
  • Böcker, Sebastian
  • Booth, Julian
  • Boucher, Christina
  • Caron, Bertrand
  • Cazaux, Bastien
  • Chauve, Cedric
  • Chindelevitch, Leonid
  • Chrétien, Stéphane
  • Ciach, Michal Aleksander
  • Dey, Tamal K.
  • Dondi, Riccardo
  • Dührkop, Kai
  • Dulworth, Peter
  • Durbin, Richard
  • Egidi, Lavinia
  • El-Kebir, Mohammed
  • Elworth, Ryan A. Leo
  • Engler, Martin S.
  • Gagie, Travis
  • Gambin, Anna
  • Garrison, Erik
  • Geerke, Daan P.
  • Grossi, Roberto
  • Guyeux, Christophe
  • Hajkarim, Morteza Chalabi
  • Hartmann, Till
  • Iliopoulos, Costas S.
  • Karpov, Nikolai
  • Klau, Gunnar W.
  • Kosolobov, Dmitry
  • Kuhnle, Alan
  • Lafond, Manuel
  • Lataretu, Marie A.
  • Louza, Felipe A.
  • Majewski, Szymon
  • Mäkinen, Veli
  • Malikic, Salem
  • Mandal, Sayan
  • Mansouri, Mehrdad
  • Manzini, Giovanni
  • Mark, Alan E.
  • Miasojedow, Blazej
  • Moulin, Serge
  • Muggli, Martin D.
  • Nakhleh, Luay
  • Niemyska, Wanda
  • Norri, Tuukka
  • Novak, Adam M.
  • Parida, Laxmi
  • Paten, Benedict J.
  • Pisanti, Nadia
  • Pissis, Solon P.
  • Prezza, Nicola
  • Puglisi, Simon J.
  • Rahman, Md. Khaledur
  • Rahmann, Sven
  • Rao, Satish
  • Rastas, Pasi
  • Rosen, Yohei M.
  • Rosone, Giovanna
  • Sahinalp, S. Cenk
  • Salmela, Leena
  • Sciortino, Marinella
  • Scornavacca, Celine
  • Sharan, Roded
  • Sirén, Jouni
  • Startek, Michal
  • Stephen, Tamon
  • Sternberg, Barak
  • Telles, Guilherme P.
  • Ukkonen, Esko
  • Upfal, Eli
  • Utro, Filippo
  • Vandin, Fabio
  • Veen, Lourens
  • Vityaz, Margaryta
  • Walve, Riku
  • Warnow, Tandy
  • White, W. Timothy J.
  • Zabeti, Hooman
  • Zhang, Qiuyi (Richard)
    		•

    		  
    Front Matter, Table of Contents, Preface, Conference Organization
    Authors: Parida, Laxmi ; Ukkonen, Esko

    Abstract | Document (316 KB) | BibTeX

    A Duality-Based Method for Identifying Elemental Balance Violations in Metabolic Network Models
    Authors: Zabeti, Hooman ; Stephen, Tamon ; Berger, Bonnie ; Chindelevitch, Leonid

    Abstract | Document (420 KB) | BibTeX

    Prefix-Free Parsing for Building Big BWTs
    Authors: Boucher, Christina ; Gagie, Travis ; Kuhnle, Alan ; Manzini, Giovanni

    Abstract | Document (710 KB) | BibTeX

    Detecting Mutations by eBWT
    Authors: Prezza, Nicola ; Pisanti, Nadia ; Sciortino, Marinella ; Rosone, Giovanna

    Abstract | Document (512 KB) | BibTeX

    Haplotype-aware graph indexes
    Authors: Sirén, Jouni ; Garrison, Erik ; Novak, Adam M. ; Paten, Benedict J. ; Durbin, Richard

    Abstract | Document (651 KB) | BibTeX

    Reconciling Multiple Genes Trees via Segmental Duplications and Losses
    Authors: Dondi, Riccardo ; Lafond, Manuel ; Scornavacca, Celine

    Abstract | Document (785 KB) | BibTeX

    Protein Classification with Improved Topological Data Analysis
    Authors: Dey, Tamal K. ; Mandal, Sayan

    Abstract | Document (1,367 KB) | BibTeX

    A Dynamic Algorithm for Network Propagation
    Authors: Sternberg, Barak ; Sharan, Roded

    Abstract | Document (480 KB) | BibTeX

    New Absolute Fast Converging Phylogeny Estimation Methods with Improved Scalability and Accuracy
    Authors: Zhang, Qiuyi (Richard) ; Rao, Satish ; Warnow, Tandy

    Abstract | Document (480 KB) | BibTeX

    An Average-Case Sublinear Exact Li and Stephens Forward Algorithm
    Authors: Rosen, Yohei M. ; Paten, Benedict J.

    Abstract | Document (1,055 KB) | BibTeX

    External memory BWT and LCP computation for sequence collections with applications
    Authors: Egidi, Lavinia ; Louza, Felipe A. ; Manzini, Giovanni ; Telles, Guilherme P.

    Abstract | Document (569 KB) | BibTeX

    Kermit: Guided Long Read Assembly using Coloured Overlap Graphs
    Authors: Walve, Riku ; Rastas, Pasi ; Salmela, Leena

    Abstract | Document (420 KB) | BibTeX

    A Succinct Solution to Rmap Alignment
    Authors: Muggli, Martin D. ; Puglisi, Simon J. ; Boucher, Christina

    Abstract | Document (607 KB) | BibTeX

    Spalter: A Meta Machine Learning Approach to Distinguish True DNA Variants from Sequencing Artefacts
    Authors: Hartmann, Till ; Rahmann, Sven

    Abstract | Document (452 KB) | BibTeX

    Essential Simplices in Persistent Homology and Subtle Admixture Detection
    Authors: Basu, Saugata ; Utro, Filippo ; Parida, Laxmi

    Abstract | Document (820 KB) | BibTeX

    Minimum Segmentation for Pan-genomic Founder Reconstruction in Linear Time
    Authors: Norri, Tuukka ; Cazaux, Bastien ; Kosolobov, Dmitry ; Mäkinen, Veli

    Abstract | Document (790 KB) | BibTeX

    Multiple-Choice Knapsack for Assigning Partial Atomic Charges in Drug-Like Molecules
    Authors: Engler, Martin S. ; Caron, Bertrand ; Veen, Lourens ; Geerke, Daan P. ; Mark, Alan E. ; Klau, Gunnar W.

    Abstract | Document (818 KB) | BibTeX

    l1-Penalised Ordinal Polytomous Regression Estimators with Application to Gene Expression Studies
    Authors: Chrétien, Stéphane ; Guyeux, Christophe ; Moulin, Serge

    Abstract | Document (466 KB) | BibTeX

    Differentially Mutated Subnetworks Discovery
    Authors: Hajkarim, Morteza Chalabi ; Upfal, Eli ; Vandin, Fabio

    Abstract | Document (802 KB) | BibTeX

    DGEN: A Test Statistic for Detection of General Introgression Scenarios
    Authors: Elworth, Ryan A. Leo ; Allen, Chabrielle ; Benedict, Travis ; Dulworth, Peter ; Nakhleh, Luay

    Abstract | Document (547 KB) | BibTeX

    PRINCE: Accurate Approximation of the Copy Number of Tandem Repeats
    Authors: Mansouri, Mehrdad ; Booth, Julian ; Vityaz, Margaryta ; Chauve, Cedric ; Chindelevitch, Leonid

    Abstract | Document (542 KB) | BibTeX

    Degenerate String Comparison and Applications
    Authors: Alzamel, Mai ; Ayad, Lorraine A. K. ; Bernardini, Giulia ; Grossi, Roberto ; Iliopoulos, Costas S. ; Pisanti, Nadia ; Pissis, Solon P. ; Rosone, Giovanna

    Abstract | Document (545 KB) | BibTeX

    A Multi-labeled Tree Edit Distance for Comparing "Clonal Trees" of Tumor Progression
    Authors: Karpov, Nikolai ; Malikic, Salem ; Rahman, Md. Khaledur ; Sahinalp, S. Cenk

    Abstract | Document (997 KB) | BibTeX

    Heuristic Algorithms for the Maximum Colorful Subtree Problem
    Authors: Dührkop, Kai ; Lataretu, Marie A. ; White, W. Timothy J. ; Böcker, Sebastian

    Abstract | Document (774 KB) | BibTeX

    Parsimonious Migration History Problem: Complexity and Algorithms
    Authors: El-Kebir, Mohammed

    Abstract | Document (1,863 KB) | BibTeX

    The Wasserstein Distance as a Dissimilarity Measure for Mass Spectra with Application to Spectral Deconvolution
    Authors: Majewski, Szymon ; Ciach, Michal Aleksander ; Startek, Michal ; Niemyska, Wanda ; Miasojedow, Blazej ; Gambin, Anna

    Abstract | Document (1,854 KB) | BibTeX

    		  



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