Blupf90

DBSCAN (Density-Based Spatial Clustering of Applications with Noise) — fast C++ implementation of density-based clustering algorithms in R. Includes DBSCAN, HDBSCAN, OPTICS/OPTICSXi, LOF outlier detec

1 shared topic • 1 shared operation

REGENIE — whole-genome regression for biobank-scale GWAS. Two-step ridge regression with leave-one-chromosome-out (LOCO) predictions for efficient single-variant and gene-based association testing. Su

1 shared topic • 1 shared operation

MaAsLin 2 (Microbiome Multivariable Association with Linear Models 2) is the bioBakery tool for finding associations between microbial features (taxa, functional pathways, gene families) and sample me

2 shared operations

SAIGE — scalable genome-wide association tests in biobank-scale data using generalized mixed models with saddlepoint approximation. Fits null logistic/linear mixed models with sparse or full GRM to ac

2 shared operations

Use when working with aurora — a machine learning GWAS R package for identifying microbial habitat adaptation genes and autochthonous strain provenance. Implements a Random Forest + random-walk (AUtoc

1 shared topic