Other Details

1000 Genomes Project data can be used for inferring ancestry.

Data Filtering explains how to specify subsets of samples and/or predictors.

Genetic Data Formats describes the many types of data LDAK can accommodate.

Kinship Formats explains how kinship matrices are saved.

Phenotypes and Covariates explains the format of phenotype and covariate files.

Quality Control provides guidelines for cleaning your data, and ways to check for inflation.

Reference Panel provides guidelines for constructing a reference panel.

Sample Subsets can be provided with Haseman-Elston or PCGC Regression.

Summary Statistics explains how to format results from single-predictor analyses.