Converts fusion weights to predictDB format

Converts fusion weights to predictDB format

Usage

convert_fusion_to_predictdb(
  weight_dir,
  fusion_method = c("lasso", "enet", "top1", "blup", "bslmm", "best.cv"),
  fusion_genome_version = NA,
  make_extra_table = TRUE,
  cov_table = NULL,
  outputdir = getwd(),
  outname
)

Arguments

weight_dir

the directory containing FUSION weights ('.wgt.RDat' files).

fusion_method

a string, specifying the method to choose in FUSION models. "best.cv" option will use the best model (smallest p-value) under cross-validation.

fusion_genome_version

a string, specifying the genome version of FUSION models

make_extra_table

If TRUE, make an extra table in predictDB format

cov_table

a data frame of covariances between variants, with columns: "GENE","RSID1","RSID2","VALUE". If NULL, do not create covariance files (.txg.gz).

outputdir

output directory

outname

name of the output weight file