Package: RfmallocStatgen 0.1.0

RfmallocStatgen: Statistical Genetics on Rfmalloc Genotype Tensors

Runs genome-scale statistical genetics methods over Rfmalloc's file-backed, compressed genotype tensors ('bed' at 2 bits per genotype, 'dosage' at 1 byte per genotype), closing over the analysis stack popularized by 'bigsnpr' and 'bigstatsr' on denser storage with native readers, and adding haplotype methods that a genotype-only stack cannot express. Methods are implemented from published algorithms and validated against 'bigsnpr' and 'bigstatsr' as numerical oracles. The exception is the randomized-SVD workhorse, which is pinned from GPL-3 'PCAone' (Li 2023) with a deterministic dependency trim and R-console adaptation. The current surface includes streamed univariate regression and principal components, banded linkage disequilibrium, LDpred2, and an all-pairs colocalisation expressed as a single matrix multiply over any registered compute backend.

Authors:Sounkou Mahamane Toure [aut, cre], Zilong Li [cph]