PAINTOR_download_annotations: Download annotations for PAINTOR

In RajLabMSSM/echofinemap: echoverse module: Fine-mapping functions

Download annotations for PAINTOR

Description

Download annotations to perform functional fine-mapping with PAINTOR.

Usage

PAINTOR_download_annotations(
  dat_merged,
  locus_dir,
  PT_results_path,
  annot_sample = FALSE,
  annot_xgr = NULL,
  annot_roadmap = NULL,
  chrom_states = NULL,
  use_annotations = TRUE,
  conda_env = "echoR_mini",
  nThread = 1,
  verbose = TRUE
)

Arguments

locus_dir	Locus-specific directory to store results in.
annot_xgr	Use annotations from XGR via XGR_query.
annot_roadmap	Use annotations from Roadmap via ROADMAP_query.
chrom_states	Filter results by chromatin states.
use_annotations	Whether to perform functional fine-mapping with specified annotations (TRUE) or simply perform statistical fine-mapping without any annotations.
conda_env	Conda environment to use.
nThread	Number of threads to parallelise across (when applicable).
verbose	Print messages.

RajLabMSSM/echofinemap documentation built on Jan. 3, 2023, 1:42 a.m.