hclust_haystack {singleCellHaystack}

Function for hierarchical clustering of genes according to their expression distribution in 2D or multi-dimensional space

Description

Function for hierarchical clustering of genes according to their expression distribution in 2D or multi-dimensional space

Usage

hclust_haystack(
  x,
  expression,
  grid.coordinates,
  hclust.method = "ward.D",
  cor.method = "spearman",
  ...
)

## S3 method for class 'matrix'
hclust_haystack(
  x,
  expression,
  grid.coordinates,
  hclust.method = "ward.D",
  cor.method = "spearman",
  ...
)

## S3 method for class 'data.frame'
hclust_haystack(
  x,
  expression,
  grid.coordinates,
  hclust.method = "ward.D",
  cor.method = "spearman",
  ...
)

Arguments

x

a matrix or other object from which coordinates of cells can be extracted.

expression

expression matrix.

grid.coordinates

coordinates of the grid points.

hclust.method

method used with hclust.

cor.method

method used with cor.

...

further parameters passed down to methods.