Python API reference

PostHoc’s CLI commands are thin wrappers around a regular importable Python package. Every function and class documented here is available under the posthoc namespace and can be used directly in scripts or notebooks — for example, to run a custom analysis loop around posthoc.attribution .pal.compute_pal() without going through the command-line interface.

• posthoc.io
• posthoc.qc
• posthoc.models
• posthoc.attribution
• posthoc.simulation

Package overview

Module	Contents
posthoc.io	Genotype (.pgen/.pvar/.psam), phenotype, and covariate readers; .glm/PAL TSV writers.
posthoc.qc	MAF, missingness, and LD-pruning filters.
posthoc.models	The MLP model, its training loop, and shared training utilities.
posthoc.attribution	Integrated Gradients attribution, PAL/AMAS aggregation, and null-model significance testing.
posthoc.simulation	The additive/dominant/recessive/interaction phenotype simulation model.
posthoc.commands	The Click command implementations documented in Command-line reference — thin orchestration over the modules above.