Gather stepwise conditional results

Gather and preprocess the results of the GCTA-COJO conditional stepwise procedure. GTCA-COJO Documentation:
"Perform a stepwise model selection procedure to select independently associated SNPs. Results will be saved in a .jma file with additional file .jma.ldr showing the LD correlations between the SNPs."

Usage

COJO_get_stepwise_results(
  cojo_dir = NULL,
  prefix = "cojo",
  jma_cojo_path = file.path(cojo_dir, paste0(prefix, ".jma.cojo")),
  verbose = TRUE
)

Arguments

prefix

Prefix to use for file names.

verbose

Print messages.

Value

independent_snps

References

https://www.nature.com/articles/ng.2213 https://www.cell.com/ajhg/fulltext/S0002-9297(10)00598-7 https://cnsgenomics.com/software/gcta/#Overview

See also

Other COJO: COJO(), COJO_locus_subdir(), COJO_process_results(), COJO_run()