haystack_2D: The main Haystack function, for 2-dimensional spaces.

In alexisvdb/singleCellHaystack: A Universal Differential Expression Prediction Tool for Single-Cell and Spatial Genomics Data

The main Haystack function, for 2-dimensional spaces.

Description

The main Haystack function, for 2-dimensional spaces.

Usage

haystack_2D(
  x,
  y,
  detection,
  use.advanced.sampling = NULL,
  dir.randomization = NULL
)

Arguments

x	x-axis coordinates of cells in a 2D representation (e.g. resulting from PCA or t-SNE)
y	y-axis coordinates of cells in a 2D representation
detection	A logical matrix showing which genes (rows) are detected in which cells (columns)
use.advanced.sampling	If NULL naive sampling is used. If a vector is given (of length = no. of cells) sampling is done according to the values in the vector.
dir.randomization	If NULL, no output is made about the random sampling step. If not NULL, files related to the randomizations are printed to this directory.

Value

An object of class "haystack"

alexisvdb/singleCellHaystack documentation built on Jan. 17, 2024, 10:45 a.m.