Perform Quality Control on Summary Statistics — summary_stats

This function performs quality control on the processed summary statistics using the specified method.

Usage

summary_stats_qc(sumstats, LD_data, n = NULL, method = c("slalom", "dentist"))

Arguments

sumstats: A data frame containing the processed summary statistics.
LD_data: A list containing the combined LD variants data generated by load_LD_matrix.
method: The quality control method to use. Options are "slalom" or "dentist" (default: "slalom").

Value

A list containing the quality-controlled summary statistics and updated LD matrix. - sumstats_qc: The quality-controlled summary statistics data frame. - LD_mat_qc: The updated LD matrix after quality control.

Details

This function applies the specified quality control method to the processed summary statistics.

The available quality control methods are: - "dentist": Applies the DENTIST quality control procedure (Chen et al 2021). - "slalom": Applies the SLALOM quality control procedure.

The function returns the quality-controlled summary statistics along with the updated LD matrix.

Examples

# Perform SLALOM quality control (default)
qc_results <- summary_stats_qc(sumstats, LD_data, method = "slalom")
#> Error: object 'LD_data' not found