addData_TFActivity: Add TF activity data to GRN object using a simplified...

In chrarnold/GRaNIE: GRaNIE: Reconstruction cell type specific gene regulatory networks including enhancers using chromatin accessibility and RNA-seq data

Add TF activity data to GRN object using a simplified procedure for estimating it. EXPERIMENTAL.

Description

Add TF activity data to GRN object using a simplified procedure for estimating it. EXPERIMENTAL.

Usage

addData_TFActivity(
  GRN,
  normalization = "cyclicLoess",
  name = "TF_activity",
  forceRerun = FALSE
)

Arguments

GRN	Object of class GRN
normalization	Character. Default cyclicLoess. One of cyclicLoess, sizeFactors, quantile, or none. Normalization procedure.
name	Name in object under which it should be stored. This corresponds to the connectionType afterwards that some functions iterate over.
forceRerun	TRUE or FALSE. Default FALSE. Force execution, even if the GRN object already contains the result. Overwrites the old results.

Value

The same GRN object, with added data from this function.

chrarnold/GRaNIE documentation built on April 28, 2022, 2:18 a.m.