Algorithms Mol. Biol.

Keyphrases

Publications

volume 19, number 1, 2024

Junyan Dai, Tobias Rubel, Yunheng Han, Erin K. Molloy
Dollo-CDP: a polynomial-time algorithm for the clade-constrained large Dollo parsimony problem. Algorithms Mol. Biol. 19 (1) (2024)
Shayesteh Arasti, Siavash Mirarab
Median quartet tree search algorithms using optimal subtree prune and regraft. Algorithms Mol. Biol. 19 (1) (2024)
Alitzel López Sánchez, Manuel Lafond
Predicting horizontal gene transfers with perfect transfer networks. Algorithms Mol. Biol. 19 (1) (2024)
Pawel Górecki, Natalia Rutecka, Agnieszka Mykowiecka, Jaroslaw Paszek
Unifying duplication episode clustering and gene-species mapping inference. Algorithms Mol. Biol. 19 (1) (2024)
Aaron Hong, Marco Oliva, Dominik Köppl, Hideo Bannai, Christina Boucher, Travis Gagie
Pfp-fm: an accelerated FM-index. Algorithms Mol. Biol. 19 (1) (2024)
Diego Díaz-Domínguez, Miika Leinonen, Leena Salmela
Space-efficient computation of k-mer dictionaries for large values of k. Algorithms Mol. Biol. 19 (1) (2024)
Jyotshna Rajput, Ghanshyam Chandra, Chirag Jain
Co-linear chaining on pangenome graphs. Algorithms Mol. Biol. 19 (1) (2024)
Jamshed Khan, Tobias Rubel, Erin K. Molloy, Laxman Dhulipala, Rob Patro
Fast, parallel, and cache-friendly suffix array construction. Algorithms Mol. Biol. 19 (1) (2024)
Yushu Liu, Mohammad Amin Edrisi, Zhi Yan, Huw A. Ogilvie, Luay Nakhleh
NestedBD: Bayesian inference of phylogenetic trees from single-cell copy number profiles under a birth-death model. Algorithms Mol. Biol. 19 (1) (2024)
Stefan Canzar, Van Hoan Do, Slobodan Jelic, Sören Laue, Domagoj Matijevic, Tomislav Prusina
Metric multidimensional scaling for large single-cell datasets using neural networks. Algorithms Mol. Biol. 19 (1) (2024)
Victor Epain, Rumen Andonov
Global exact optimisations for chloroplast structural haplotype scaffolding. Algorithms Mol. Biol. 19 (1) (2024)
Yutong Qiu, Yihang Shen, Carl Kingsford
Revisiting the complexity of and algorithms for the graph traversal edit distance and its variants. Algorithms Mol. Biol. 19 (1) (2024)
Jason Fan, Jamshed Khan, Noor Pratap Singh, Giulio Ermanno Pibiri, Rob Patro
Fulgor: a fast and compact k-mer index for large-scale matching and color queries. Algorithms Mol. Biol. 19 (1) (2024)
Marília D. V. Braga, Leonie R. Brockmann, Katharina Klerx, Jens Stoye
Investigating the complexity of the double distance problems. Algorithms Mol. Biol. 19 (1) (2024)
Mateo Gray, Sebastian Will, Hosna Jabbari
SparseRNAfolD: optimized sparse RNA pseudoknot-free folding with dangle consideration. Algorithms Mol. Biol. 19 (1) (2024)
Zsuzsanna Lipták, Francesco Masillo, Simon J. Puglisi
Suffix sorting via matching statistics. Algorithms Mol. Biol. 19 (1) (2024)
Hua-Ting Yao, Bertrand Marchand, Sarah J. Berkemer, Yann Ponty, Sebastian Will
Infrared: a declarative tree decomposition-powered framework for bioinformatics. Algorithms Mol. Biol. 19 (1) (2024)
Nicola Rizzo, Manuel Cáceres, Veli Mäkinen
Finding maximal exact matches in graphs. Algorithms Mol. Biol. 19 (1) (2024)
Leonard Bohnenkämper
Recombinations, chains and caps: resolving problems with the DCJ-indel model. Algorithms Mol. Biol. 19 (1) (2024)
Amatur Rahman, Yoann Dufresne, Paul Medvedev
Compression algorithm for colored de Bruijn graphs. Algorithms Mol. Biol. 19 (1) (2024)
Tizian Schulz, Paul Medvedev
ESKEMAP: exact sketch-based read mapping. Algorithms Mol. Biol. 19 (1) (2024)

volume 18, number 1, 2023

volume 17, number 1, 2022