defineJunction: Annotate spots on border between two features

In iaaka/visutils: QC, analyse and visualize visium

Annotate spots on border between two features

Description

find spots that belongs to one feature but contact with another

Usage

defineJunction(
  v,
  ann.column,
  which,
  contactTo,
  image.name = NULL,
  dist.thr = 1.2
)

Arguments

v	Seurat visium object
ann.column	name of meta.data column that holds feature annotation
which	name if feature border spots should belong to
contactTo	name if feature border spots should contact with
image.name	image to use, specify if object contains more than one sample
dist.thr	maximal distance (in distances between spots) to consider spots as neighbors

Value

data.frame with two columns logical 'junction' that specifies whether spot belongs to junction and numerical 'dist2junction' expressed in inter-spot distances

iaaka/visutils documentation built on Jan. 17, 2025, 11:29 p.m.