get_clusters_SNN_bulk: Get SNN shared nearest neighbour clusters to a tibble

In tidybulk: Brings transcriptomics to the tidyverse

Description

Get SNN shared nearest neighbour clusters to a tibble

Usage

get_clusters_SNN_bulk(
  .data,
  .element = NULL,
  .feature = NULL,
  .abundance,
  of_samples = TRUE,
  log_transform = TRUE,
  ...
)

Arguments

.data	A tibble
.element	A column symbol. The column that is used to calculate distance (i.e., normally genes)
.feature	A column symbol. The column that is represents entities to cluster (i.e., normally samples)
.abundance	A column symbol with the value the clustering is based on (e.g., 'count')
of_samples	A boolean
log_transform	A boolean, whether the value should be log-transformed (e.g., TRUE for RNA sequencing data)
...	Further parameters passed to the function kmeans

Value

A tibble with additional columns

tidybulk documentation built on April 7, 2021, 6 p.m.