arXiv subjects

Phillip M. Alday

Publications and source records attributed to Phillip M. Alday.

4 recordsLinked to original sources

arXiv2025

Mixed-model Log-likelihood Evaluation Via a Blocked Cholesky Factorization

Bates et al. (2015) described the evaluation of the profiled log-likelihood of a linear mixed-effects model by updating a sparse, symmetric positive-definite matrix and computing its Cholesky factor, as implemented in the lme4 package for R. Here we present enhancements to the derivation and theoretical presentation of the result and to its implementation using a blocked Cholesky factorization in the MixedModels$.$jl package for Julia (Bezanson et al., 2017). The gain in computational efficiency is primarily due to three factors: (1) the new derivation allows us to compute the penalized residual sum of squares without computing the conditional estimates of the fixed-effects parameters and the conditional modes of the random effects at each optimization step, (2) the blocked Cholesky representation and careful ordering of the random effects terms reduces the amount of "fill-in" that occurs during the Cholesky factorization, and (3) the multiple dispatch feature of the Julia language allows us to use specialized algorithms for different kinds of matrices instead of relying on generic algorithms during the Cholesky factorization. To show the effectiveness of the blocked Cholesky approach we use it to fit a linear mixed model to over 32 million ratings of movies in the MovieLens ml-32m (Harper and Konstan, 2016) data set. The model incorporates random effects for over 200,000 movies and over 80,000 participants. Further enhancements to these computational methods are suggested.

stat.CO↗

arXiv2019

How much baseline correction do we need in ERP research? Extended GLM model can replace baseline correction while lifting its limits

Baseline correction plays an important role in past and current methodological debates in ERP research (e.g. the Tanner v. Maess debate in Journal of Neuroscience Methods), serving as a potential alternative to strong highpass filtering. However, the very assumptions that underlie traditional baseline also undermine it, making it statistically unnecessary and even undesirable and reducing signal-to-noise ratio. Including the baseline interval as a predictor in a GLM-based statistical approach allows the data to determine how much baseline correction is needed, including both full traditional and no baseline correction as subcases, while reducing the amount of variance in the residual error term and thus potentially increasing statistical power.

stat.AP↗

arXiv2016

A common misapplication of statistical inference: nuisance control with null-hypothesis significance tests

Experimental research on behavior and cognition frequently rests on stimulus or subject selection where not all characteristics can be fully controlled, even when attempting strict matching. For example, when contrasting patients to controls, variables such as intelligence or socioeconomic status are often correlated with patient status. Similarly, when presenting word stimuli, variables such as word frequency are often correlated with primary variables of interest. One procedure very commonly employed to control for such nuisance effects is conducting inferential tests on confounding stimulus or subject characteristics. For example, if word length is not significantly different for two stimulus sets, they are considered as matched for word length. Such a test has high error rates and is conceptually misguided. It reflects a common misunderstanding of statistical tests: interpreting significance not to refer to inference about a particular population parameter, but about 1. the sample in question, 2. the practical relevance of a sample difference (so that a nonsignificant test is taken to indicate evidence for the absence of relevant differences). We show inferential testing for assessing nuisance effects to be inappropriate both pragmatically and philosophically, present a survey showing its high prevalence, and briefly discuss an alternative in the form of regression including nuisance variables.

stat.ME↗

arXiv2014

Be Careful When Assuming the Obvious: Commentary on "The placement of the head that minimizes online memory: a complex systems approach"

Ferrer-i-Cancho (2015) presents a mathematical model of both the synchronic and diachronic nature of word order based on the assumption that memory costs are a never decreasing function of distance and a few very general linguistic assumptions. However, even these minimal and seemingly obvious assumptions are not as safe as they appear in light of recent typological and psycholinguistic evidence. The interaction of word order and memory has further depths to be explored.

cs.CL↗