check_small_p_val {MungeSumstats} | R Documentation |
Ensure that the p values are not 5e-324 or lower, if so set to 0
check_small_p_val(sumstats_dt, path, convert_small_p, imputation_ind)
sumstats_dt |
data table obj of the summary statistics file for the GWAS |
path |
Filepath for the summary statistics file to be formatted |
convert_small_p |
Binary, should p-values < 5e-324 be converted to 0? Small p-values pass the R limit and can cause errors with LDSC/MAGMA and should be converted. Default is TRUE. |
imputation_ind |
Binary Should a column be added for each imputation step to show what SNPs have imputed values for differing fields. This includes a field denoting SNP allele flipping (flipped). Note these columns will be in the formatted summary statistics returned. Default is FALSE. |
list containing sumstats_dt, the modified summary statistics data table object