get_reduced_dimensions_MDS_bulk_SE {tidybulk} | R Documentation

## Get dimensionality information to a tibble using MDS

### Description

Get dimensionality information to a tibble using MDS

### Usage

    get_reduced_dimensions_MDS_bulk_SE(
      .data,
      .dims = 2,
      top = 500,
      of_samples = TRUE,
      log_transform = TRUE,
      scale = NULL
    )

### Arguments

`.data` | A tibble
`.dims` | A integer vector corresponding to principal components of interest (e.g., 1:6)
`top` | An integer. How many top genes to select
`of_samples` | A boolean
`log_transform` | A boolean, whether the value should be log-transformed (e.g., TRUE for RNA sequencing data)
`scale` | A boolean
`.abundance` | A column symbol with the value the clustering is based on (e.g., 'count')
`.feature` | A column symbol. The column that is represents entities to cluster (i.e., normally genes)
`.element` | A column symbol. The column that is used to calculate distance (i.e., normally samples)

### Value

A tibble with additional columns

[Package tidybulk version 1.4.0 Index]