PUMICE.nested_cv: Run nested cross-validation to determine which window type...

In LidaWangPSU/PUMICE: (Prediction Using Models Informed by Chromatin conformations and Epigenomics

Run nested cross-validation to determine which window type and penalty factor are optimal

Description

Run nested cross-validation to determine which window type and penalty factor are optimal

Usage

PUMICE.nested_cv(
  geno_path,
  exp_path,
  encode_path,
  output_path,
  window,
  window_path_list = NULL
)

Arguments

geno_path	genotype path, plink format
exp_path	expression path, txt format
encode_path	epigenomic annotation path, txt format
output_path	dir of your output file
window	specify the constant or 3D window you need
window_path_list	A list of 3d genomic winodows you need

Examples

PUMICE.nested_cv()

LidaWangPSU/PUMICE documentation built on Oct. 9, 2022, 3:57 p.m.