SummaryConsistency {susieR}

Simulated Fine-mapping Data with LD matrix From Reference Panel.

Description

Data simulated using real genotypes from 10,000 individuals and 200 SNPs. One SNP have non-zero effect on the multivariate response. The response data are generated under a linear regression model. There is also one SNP with flipped allele between summary statistics and the reference panel.

Format

SummaryConsistency is a list with the following elements:

z

z-scores computed by fitting univariate simple regression variable-by-variable.

ldref

LD matrix estimated from the reference panel.

flip_id

The index of the SNP with the flipped allele.

signal_id

The index of the SNP with the non-zero effect.

See Also

A similar data set with more samples is used in the “Diagnostic for fine-mapping with summary statistics” vignette.

Examples

data(SummaryConsistency)