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Olivier Francois

Publications and source records attributed to Olivier Francois.

3 recordsLinked to original sources

Arbitrariness of peer review: A Bayesian analysis of the NIPS experiment

The principle of peer review is central to the evaluation of research, by ensuring that only high-quality items are funded or published. But peer review has also received criticism, as the selection of reviewers may introduce biases in the system. In 2014, the organizers of the ``Neural Information Processing Systems\rq\rq{} conference conducted an experiment in which $10\%$ of submitted manuscripts (166 items) went through the review process twice. Arbitrariness was measured as the conditional probability for an accepted submission to get rejected if examined by the second committee. This number was equal to $60\%$, for a total acceptance rate equal to $22.5\%$. Here we present a Bayesian analysis of those two numbers, by introducing a hidden parameter which measures the probability that a submission meets basic quality criteria. The standard quality criteria usually include novelty, clarity, reproducibility, correctness and no form of misconduct, and are met by a large proportions of submitted items. The Bayesian estimate for the hidden parameter was equal to $56\%$ ($95\%$CI: $ I = (0.34, 0.83)$), and had a clear interpretation. The result suggested the total acceptance rate should be increased in order to decrease arbitrariness estimates in future review processes.

stat.OT↗

Deviance Information Criteria for Model Selection in Approximate Bayesian Computation

Approximate Bayesian computation (ABC) is a class of algorithmic methods in Bayesian inference using statistical summaries and computer simulations. ABC has become popular in evolutionary genetics and in other branches of biology. However model selection under ABC algorithms has been a subject of intense debate during the recent years. Here we propose novel approaches to model selection based on posterior predictive distributions and approximations of the deviance. We argue that this framework can settle some contradictions between the computation of model probabilities and posterior predictive checks using ABC posterior distributions. A simulation study and an analysis of a resequencing data set of human DNA show that the deviance criteria lead to sensible results in a number of model choice problems of interest to population geneticists.

stat.CO↗

A continuous model for cell sorting

The differential Adhesion Hypothesis (DAH) is a theory of the organization of cells within a tissue. In this study we introduce a stochastic model supporting the DAH, that can be seen as a continuous version of a discrete model of Graner and Glazier. Our approach is based on the mathematical framework of Gibbsian marked point processes. We provide a Markov chain Monte Carlo algorithm that can reproduce classical biological patterns, and we propose an estimation procedure for a parameter that quantifies the strength of adhesion between cells. This procedure is tested through simulations.

q-bio.TO↗