Optimizing Causal Orderings for Generating DAGs from Data. - Remco R. Bouckaert (UAI, 1992)

Probalistic Network Construction Using the Minimum Description Length Principle. - Remco R. Bouckaert (ECSQARU, 1993)

IDAGs: a Perfect Map for Any Distribution. - Remco R. Bouckaert (ECSQARU, 1993)

Properties of Bayesian Belief Network Learning Algorithms. - Remco R. Bouckaert (UAI, 1994)

A Stratified Simulation Scheme for Inference in Bayesian Belief Networks. - Remco R. Bouckaert (UAI, 1994)

Chain graphs: semantics and expressiveness. - Remco R. Bouckaert; Milan Studený (ECSQARU, 1995)

Error Estimation in Approximate Bayesian Belief Network Inference. - Enrique F. Castillo; Remco R. Bouckaert; José María Sarabia; Cristina Solares (UAI, 1995)

A modified simulation scheme for inference in Bayesian networks. - Remco R. Bouckaert; Enrique F. Castillo; José Manuel Gutiérrez (Int. J. Approx. Reason., 1996)

On characterizing Inclusion of Bayesian Networks. - Tomás Kocka; Remco R. Bouckaert; Milan Studený (UAI, 2001)

A Probabilistic Line Breaking Algorithm. - Remco R. Bouckaert (Australian Conference on Artificial Intelligence, 2003)

Choosing Learning Algorithms Using Sign Tests with High Replicability. - Remco R. Bouckaert (Australian Conference on Artificial Intelligence, 2003)

Choosing Between Two Learning Algorithms Based on Calibrated Tests. - Remco R. Bouckaert (ICML, 2003)

Naive Bayes Classifiers That Perform Well with Continuous Variables. - Remco R. Bouckaert (Australian Conference on Artificial Intelligence, 2004)

Estimating replicability of classifier learning experiments. - Remco R. Bouckaert (ICML, 2004)

Evaluating the Replicability of Significance Tests for Comparing Learning Algorithms. - Remco R. Bouckaert; Eibe Frank (PAKDD, 2004)

Racing for Conditional Independence Inference. - Remco R. Bouckaert; Milan Studený (ECSQARU, 2005)

Efficient AUC Learning Curve Calculation. - Remco R. Bouckaert (Australian Conference on Artificial Intelligence, 2006)

Voting Massive Collections of Bayesian Network Classifiers for Data Streams. - Remco R. Bouckaert (Australian Conference on Artificial Intelligence, 2006)

Generalized Unified Decomposition of Ensemble Loss. - Remco R. Bouckaert; Michael Goebel; Patricia J. Riddle (Australian Conference on Artificial Intelligence, 2006)

Naive Bayes for Text Classification with Unbalanced Classes. - Eibe Frank; Remco R. Bouckaert (PKDD, 2006)

Racing algorithms for conditional independence inference. - Remco R. Bouckaert; Milan Studený (Int. J. Approx. Reason., 2007)

Practical Bias Variance Decomposition. - Remco R. Bouckaert (Australasian Conference on Artificial Intelligence, 2008)

A Hierarchical Face Recognition Algorithm. - Remco R. Bouckaert (ACML, 2009)

Conditional Density Estimation with Class Probability Estimators. - Eibe Frank; Remco R. Bouckaert (ACML, 2009)

DensiTree: making sense of sets of phylogenetic trees. - Remco R. Bouckaert (Bioinform., 2010)

WEKA - Experiences with a Java Open-Source Project. - Remco R. Bouckaert; Eibe Frank; Mark A. Hall; Geoffrey Holmes 001; Bernhard Pfahringer; Peter Reutemann; Ian H. Witten (J. Mach. Learn. Res., 2010)

Efficient Algorithms for Conditional Independence Inference. - Remco R. Bouckaert; Raymond Hemmecke; Silvia Lindner; Milan Studený (J. Mach. Learn. Res., 2010)

BEAST 2: A Software Platform for Bayesian Evolutionary Analysis. - Remco R. Bouckaert; Joseph Heled; Denise Kühnert; Timothy G. Vaughan; Chieh-Hsi Wu; Dong Xie; Marc A. Suchard; Andrew Rambaut; Alexei J. Drummond (PLoS Comput. Biol., 2014)

BEAST 2.5: An advanced software platform for Bayesian evolutionary analysis. - Remco R. Bouckaert; Timothy G. Vaughan; Joëlle Barido-Sottani; Sebastián Duchêne; Mathieu Fourment; Alexandra Gavryushkina; Joseph Heled; Graham Jones; Denise Kühnert; Nicola De Maio; Michael Matschiner; Fábio K. Mendes; et al. (PLoS Comput. Biol., 2019)

Bayesian phylodynamics of avian influenza A virus H9N2 in Asia with time-dependent predictors of migration. - Jing Yang; Nicola F. Müller; Remco R. Bouckaert; Bing Xu 001; Alexei J. Drummond (PLoS Comput. Biol., 2019)

Combinatorial perspectives on Dollo-k characters in phylogenetics. - Remco R. Bouckaert; Mareike Fischer 001; Kristina Wicke (Adv. Appl. Math., 2021)

Adaptive dating and fast proposals: Revisiting the phylogenetic relaxed clock model. - Jordan Douglas; Rong Zhang; Remco R. Bouckaert (PLoS Comput. Biol., 2021)

An Automated Convergence Diagnostic for Phylogenetic MCMC Analyses. - Lars Berling; Remco R. Bouckaert; Alex Gavryushkin (IEEE ACM Trans. Comput. Biol. Bioinform., 2024)

Accurate Bayesian phylogenetic point estimation using a tree distribution parameterized by clade probabilities. - Lars Berling; Jonathan Klawitter; Remco R. Bouckaert; Dong Xie; Alex Gavryushkin; Alexei J. Drummond (PLoS Comput. Biol., 2025)