InternalDistance: Calculates internal distance

Description Usage Arguments Details Value See Also

View source: R/distance.R

Description

Calculates internal distance

Usage

1
2
3
InternalDistance(seurat_object, group = NULL, reduction = "pca",
  dims = 1:30, method = "linkage", distance = "euclidean",
  split_by = NULL, output = "seurat")

Arguments

seurat_object

A seurat object

group

Seurat Categories or groups for which the distances between are calculated. Cell wise data.

reduction

Dimensionality reduction data to use

dims

Which dimensions to use

method

Cluster Distance methods to use. Options are "single", "complete", "average", "centroid", "ward", "mahalanobis". Further explanation for these methods is given in the details.

distance

Point to point distance to use. Options are "euclidean", "maximum", "manhattan", "canberra", "binary", "minkowski"

split_by

Second seurat category to split the calculations over.

output

Whether to output as a seurat object (with data stored within) or as a table containing the information.

Details

For more information about the implementation of this method see the other methods in this function family.

Value

Table or Seurat object with internal distance information

See Also

Other internal_distance: internal_distance, internal_linkage_distance, internal_mahalanobis_distance


sbrn3/disscat documentation built on Dec. 12, 2019, 7:54 a.m.