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Algorithms for Molecular Biology, Volume 15
Volume 15, Number 1, December 2020
- Sarah A. Christensen
, Erin K. Molloy
, Pranjal Vachaspati, Ananya Yammanuru
, Tandy J. Warnow
:
Non-parametric correction of estimated gene trees using TRACTION. 1 - Jarno Alanko
, Hideo Bannai, Bastien Cazaux, Pierre Peterlongo, Jens Stoye
:
Finding all maximal perfect haplotype blocks in linear time. 2 - Loai AbedAllah, Malik Yousef
:
GrpClassifierEC: a novel classification approach based on the ensemble clustering space. 3 - Roland Wittler:
Alignment- and reference-free phylogenomics with colored de Bruijn graphs. 4 - Peter F. Stadler
, Manuela Geiß
, David Schaller
, Alitzel López
, Marcos E. González Laffitte, Dulce I. Valdivia
, Marc Hellmuth
, Maribel Hernandez-Rosales:
From pairs of most similar sequences to phylogenetic best matches. 5 - Mukul S. Bansal
:
Linear-time algorithms for phylogenetic tree completion under Robinson-Foulds distance. 6 - Wei Wang
, Jack Smith, Hussein A. Hejase, Kevin J. Liu
:
Non-parametric and semi-parametric support estimation using SEquential RESampling random walks on biomolecular sequences. 7 - Aniket C. Mane, Manuel Lafond, Pedro Cipriano Feijão, Cédric Chauve:
The distance and median problems in the single-cut-or-join model with single-gene duplications. 8 - Yutong Qiu
, Cong Ma, Han Xie, Carl Kingsford
:
Detecting transcriptomic structural variants in heterogeneous contexts via the Multiple Compatible Arrangements Problem. 9 - Hongyi Xin
, Mingfu Shao, Carl Kingsford
:
Context-aware seeds for read mapping. 10 - Georgi D. Georgiev, Kevin F. Dodd, Brian Y. Chen
:
Precise parallel volumetric comparison of molecular surfaces and electrostatic isopotentials. 11 - Mattéo Delabre
, Nadia El-Mabrouk, Katharina T. Huber, Manuel Lafond, Vincent Moulton
, Emmanuel Noutahi, Miguel Sautie Castellanos:
Evolution through segmental duplications and losses: a Super-Reconciliation approach. 12 - Florent Guinot, Marie Szafranski
, Julien Chiquet, Anouk Zancarini
, Christine Le Signor
, Christophe Mougel, Christophe Ambroise:
Fast computation of genome-metagenome interaction effects. 13 - Tiziana Calamoneri, Mattia Gastaldello, Arnaud Mary
, Marie-France Sagot, Blerina Sinaimeri
:
Algorithms for the quantitative Lock/Key model of cytoplasmic incompatibility. 14 - Thomas J. X. Li, Christian M. Reidys:
On an enhancement of RNA probing data using information theory. 15 - Manuel Lafond, Marc Hellmuth
:
Reconstruction of time-consistent species trees. 16 - John L. Spouge
, Joseph M. Ziegelbauer, Mileidy Gonzalez:
A linear-time algorithm that avoids inverses and computes Jackknife (leave-one-out) products like convolutions or other operators in commutative semigroups. 17 - Felipe A. Louza
, Guilherme P. Telles, Simon Gog
, Nicola Prezza, Giovanna Rosone:
gsufsort: constructing suffix arrays, LCP arrays and BWTs for string collections. 18 - Milad Miladi
, Martin Raden, Sebastian Will, Rolf Backofen
:
Fast and accurate structure probability estimation for simultaneous alignment and folding of RNAs with Markov chains. 19
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