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Jasmijn Baaijens
Jasmijn Baaijens
Verified email at tudelft.nl - Homepage
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Cited by
Cited by
Year
Eleven grand challenges in single-cell data science
D Lähnemann, J Köster, E Szczurek, DJ McCarthy, SC Hicks, ...
Genome Biology 21 (1), 1-35, 2020
9232020
Bioconda: sustainable and comprehensive software distribution for the life sciences
B Grüning, R Dale, A Sjödin, BA Chapman, J Rowe, CH Tomkins-Tinch, ...
Nature methods 15 (7), 475-476, 2018
7892018
A high-quality human reference panel reveals the complexity and distribution of genomic structural variants
JY Hehir-Kwa, T Marschall, WP Kloosterman, LC Francioli, JA Baaijens, ...
Nature communications 7 (1), 1-10, 2016
1042016
De novo assembly of viral quasispecies using overlap graphs
JA Baaijens, AZ El Aabidine, E Rivals, A Schönhuth
Genome research 27 (5), 835-848, 2017
1012017
Full-length de novo viral quasispecies assembly through variation graph construction
JA Baaijens, B Van der Roest, J Köster, L Stougie, A Schönhuth
Bioinformatics 35 (24), 5086-5094, 2019
432019
Strain-aware assembly of genomes from mixed samples using flow variation graphs
JA Baaijens, L Stougie, A Schönhuth
Research in Computational Molecular Biology: 24th Annual International …, 2020
352020
Computational graph pangenomics: a tutorial on data structures and their applications
JA Baaijens, P Bonizzoni, C Boucher, G Della Vedova, Y Pirola, R Rizzi, ...
Natural Computing 21 (1), 81-108, 2022
272022
Variant abundance estimation for SARS-CoV-2 in wastewater using RNA-Seq quantification
JA Baaijens, A Zulli, IM Ott, ME Petrone, T Alpert, JR Fauver, CC Kalinich, ...
medRxiv, 2021
272021
Lineage abundance estimation for SARS-CoV-2 in wastewater using transcriptome quantification techniques
JA Baaijens, A Zulli, IM Ott, I Nika, MJ van der Lugt, ME Petrone, T Alpert, ...
Genome biology 23 (1), 236, 2022
182022
Overlap graph-based generation of haplotigs for diploids and polyploids
JA Baaijens, A Schönhuth
Bioinformatics 35 (21), 4281-4289, 2019
182019
On the existence of identifiable reparametrizations for linear compartment models
JA Baaijens, J Draisma
SIAM Journal on Applied Mathematics 76 (4), 1577-1605, 2016
162016
Euclidean distance degrees of real algebraic groups
JA Baaijens, J Draisma
Linear Algebra and its Applications 467, 174-187, 2015
152015
12 Grand challenges in single-cell data science
D Laehnemann, J Köster, E Szczurek, DJ McCarthy, SC Hicks, ...
PeerJ Preprints, 2019
92019
A high-quality reference panel reveals the complexity and distribution of structural genome changes in a human population
J Hehir-Kwa, T Marschall, WP Kloosterman, LC Francioli, JA Baaijens, ...
BioRxiv, 036897, 2016
42016
Tracking SARS-CoV-2 variants of concern in wastewater: an assessment of nine computational tools using simulated genomic data
SG Sutcliffe, SA Kraemer, I Ellmen, JJ Knapp, AK Overton, D Nash, ...
bioRxiv, 2023.12. 20.572426, 2023
2023
AmpliDiff: An Optimized Amplicon Sequencing Approach to Estimating Lineage Abundances in Viral Metagenomes
J van Bemmelen, DS Smyth, JA Baaijens
bioRxiv, 2023.07. 22.550164, 2023
2023
Variant abundance estimation for SARS-CoV-2 in wastewater using RNA-Seq quantification (preprint)
JA Baaijens, A Zulli, IM Ott, ME Petrone, T Alpert, JR Fauver, CC Kalinich, ...
2021
De novo approaches to haplotype-aware genome assembly
JA Baaijens
Utrecht University, 2019
2019
De Novo Viral Quasispecies Assembly using Overlap Graphs
JA Baaijens, AZ El Aabidine, E Rivals, A Schönhuth
2016
A high-quality human reference panel reveals the complexity and distribution of genomic structural variants
T Marschall, W Kloosterman, J Baaijens, L Dijkstra, AA Abdellaoui, ...
2016
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