GetFootprintData function

Get footprinting data

Extract footprint data for a set of transcription factors or metafeatures. This function will pull accessibility data for a given feature (eg, a TF), and perform background normalization for each identity class. This is the data that's used to create TF footprinting plots with the PlotFootprint function.

GetFootprintData(
  object,
  features,
  assay = NULL,
  group.by = NULL,
  idents = NULL
)

Arguments

• object: A Seurat object
• features: A vector of features to extract data for
• assay: Name of assay to use
• group.by: A grouping variable
• idents: Set of identities to group cells by

Returns

Returns a data.frame with the following columns:

• group: Cell group (determined by group.by parameter
• position: Position relative to motif center
• count: Normalized Tn5 insertion counts at each position
• norm.value: Normalized Tn5 insertion counts at each position (same as count)
• feature: Name of the footprinted motif
• class: observed or expected