LinearPFN: Amortized Variable Selection for Linear Models with Interactions

Louis Schiekiera, Max Zimmer, Christophe Roux, Manuel Arnold, Sebastian Pokutta +1

Spike-and-slab regression is a standard Bayesian formulation of variable selection: it returns a posterior distribution over which candidate effects are active rather than a single selected subset, so that every candidate effect carries an inclusion probability. Its cost grows exponentially with the number of candidate effects, so the posterior can be enumerated exactly only when the number of predictors is small. Beyond that reach, the posterior has to be approximated, typically by Markov chain Monte Carlo over the model space, which requires a fresh run for every dataset and, within a fixed budget of steps, may fail to converge. We present LinearPFN, a prior-data fitted transformer network that amortizes spike-and-slab inference for linear models with main effects and pairwise interactions. The network is pretrained once on synthetic datasets, drawn from an explicitly specified prior, and a single forward pass over a new dataset returns posterior inclusion probabilities, posterior-mean coefficients and posterior predictive distributions with no per-dataset fitting. The prior is conjugate by design, so that the posterior for each fixed set of active effects has a closed form,…