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List of works by Veli Mäkinen

A framework for space-efficient read clustering in metagenomic samples

scientific article

A safe and complete algorithm for metagenomic assembly.

scientific article published on 7 February 2018

Bit-parallel sequence-to-graph alignment

scientific article published on 01 October 2019

Combinatorial approaches for mass spectra recalibration.

scientific article published in January 2008

Detection of Viruses in Sweetpotato from Honduras and Guatemala Augmented by Deep-Sequencing of Small-RNAs

scientific article published on 01 October 2012

Discovery of potential causative mutations in human coding and noncoding genome with the interactive software BasePlayer

scientific article published on 01 November 2018

Distributed hybrid-indexing of compressed pan-genomes for scalable and fast sequence alignment

scientific article published on 03 August 2021

Efficient construction of maximal and minimal representations of motifs of a string

Evaluating approaches to find exon chains based on long reads

scientific article published on 9 January 2017

Explaining a Weighted DAG with Few Paths for Solving Genome-Guided Multi-Assembly.

scientific article published in November 2015

Fast scaffolding with small independent mixed integer programs

scientific article published on 13 October 2011

Gap Filling as Exact Path Length Problem.

scientific article published on 9 March 2016

Haploid to diploid alignment for variation calling assessment

scientific article

Hardness of Covering Alignment: Phase Transition in Post-Sequence Genomics

scientific article published on 30 April 2018

Indexing Graphs for Path Queries with Applications in Genome Research.

scientific article published on March 2014

Linear time minimum segmentation enables scalable founder reconstruction

scientific article published on 17 May 2019

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

scientific article published in March 2019

Normalized N50 assembly metric using gap-restricted co-linear chaining

scientific article

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

scientific article

Peak alignment using restricted edit distances.

scientific article published on 4 March 2007

Recombination-aware alignment of diploid individuals

scientific article published on 17 October 2014

Repeat- and error-aware comparison of deletions.

scientific article published on 15 May 2015

SNV-PPILP: refined SNV calling for tumor data using perfect phylogenies and ILP.

scientific article

Storage and retrieval of highly repetitive sequence collections.

scientific article published in March 2010

The Glanville fritillary genome retains an ancient karyotype and reveals selective chromosomal fusions in Lepidoptera

scientific article

Towards pan-genome read alignment to improve variation calling.

scientific article

Variant genotyping with gap filling

scientific article published on 8 September 2017

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