create_gene_covar_file_mode: Create gene covariance file: by mode

In NathanSkene/MAGMA_Celltyping: Find Causal Cell-Types Underlying Complex Trait Genetics

Create gene covariance file: by mode

Description

Create gene covariance file for a given EnrichmentMode.

Usage

create_gene_covar_file_mode(
  EnrichmentMode,
  magmaPaths,
  ctd,
  annotLevel,
  ctd_species
)

Arguments

EnrichmentMode	[Optional] Should either 'Linear' or 'Top 10%' mode be used for testing enrichment?
magmaPaths	Output of get_magma_paths.
ctd	Cell type data structure containing specificity_quantiles.
ctd_species	Species name relevant to the CellTypeDataset (ctd). See list_species for all available species. If ctd_species=NULL (default), the ctd species will automatically be inferred using infer_species.

NathanSkene/MAGMA_Celltyping documentation built on Oct. 11, 2024, 7:19 a.m.