Extremely fast construction and querying of compacted and colored de Bruijn graphs with GGCAT

por Cracco, Andrea, Tomescu, Alexandru I.
Publicado 2023

On the complexity of Minimum Path Cover with Subpath Constraints for multi-assembly

por Rizzi, Romeo, Tomescu, Alexandru I, Mäkinen, Veli
Publicado 2014

A safe and complete algorithm for metagenomic assembly

por Obscura Acosta, Nidia, Mäkinen, Veli, Tomescu, Alexandru I.
Publicado 2018

A novel min-cost flow method for estimating transcript expression with RNA-Seq

por Tomescu, Alexandru I, Kuosmanen, Anna, Rizzi, Romeo, Mäkinen, Veli
Publicado 2013

A Rank-Based Sequence Aligner with Applications in Phylogenetic Analysis

por Dinu, Liviu P., Ionescu, Radu Tudor, Tomescu, Alexandru I.
Publicado 2014

The omnitig framework can improve genome assembly contiguity in practice

por Schmidt, Sebastian, Toivonen, Santeri, Medvedev, Paul, Tomescu, Alexandru I.
Publicado 2023

Chaining for accurate alignment of erroneous long reads to acyclic variation graphs

por Ma, Jun, Cáceres, Manuel, Salmela, Leena, Mäkinen, Veli, Tomescu, Alexandru I
Publicado 2023

Efficient Minimum Flow Decomposition via Integer Linear Programming

por Dias, Fernando H.C., Williams, Lucia, Mumey, Brendan, Tomescu, Alexandru I.
Publicado 2022

Improving RNA Assembly via Safety and Completeness in Flow Decompositions

por Khan, Shahbaz, Kortelainen, Milla, Cáceres, Manuel, Williams, Lucia, Tomescu, Alexandru I.
Publicado 2022

Matchtigs: minimum plain text representation of k-mer sets

por Schmidt, Sebastian, Khan, Shahbaz, Alanko, Jarno N., Pibiri, Giulio E., Tomescu, Alexandru I.
Publicado 2023

A safety framework for flow decomposition problems via integer linear programming

por Dias, Fernando H C, Cáceres, Manuel, Williams, Lucia, Mumey, Brendan, Tomescu, Alexandru I
Publicado 2023

cloudrnaSPAdes: Isoform assembly using bulk barcoded RNA sequencing data

por Meleshko, Dmitry, Prjbelski, Andrey D., Raiko, Mikhail, Tomescu, Alexandru I., Tilgner, Hagen, Hajirasouliha, Iman
Publicado 2023

Sensitive inference of alignment-safe intervals from biodiverse protein sequence clusters using EMERALD

por Grigorjew, Andreas, Gynter, Artur, Dias, Fernando H. C., Buchfink, Benjamin, Drost, Hajk-Georg, Tomescu, Alexandru I.
Publicado 2023

MIPUP: minimum perfect unmixed phylogenies for multi-sampled tumors via branchings and ILP

por Husić, Edin, Li, Xinyue, Hujdurović, Ademir, Mehine, Miika, Rizzi, Romeo, Mäkinen, Veli, Milanič, Martin, Tomescu, Alexandru I
Publicado 2019