ReductionBridge: ReductionBridge

In milescsmith/ReductionWrappers: Wrapper exposing several Python dimensional reduction tools

ReductionBridge

Description

Generalized helper function that pulls the data from an object, passes the dataframe to a Python function, and places the resulting dataframe in the appropriate slot

Usage

ReductionBridge(object, ...)

## S3 method for class 'Seurat'
ReductionBridge(
  object,
  reduction_use = "pca",
  reduction_save,
  function_use,
  dims_use = NULL,
  assay_use = NULL,
  ...
)

## S3 method for class 'SingleCellExperiment'
ReductionBridge(
  object,
  reduction_use = "PCA",
  reduction_save,
  function_use,
  dims_use = NULL,
  ...
)

Arguments

object	A Seurat or SingleCellExperiment object to be transformed.
...	Extra parameters to pass to the dimensional reduction function.
reduction_use	Prior dimensional reduction to use for calculations (i.e. pca, ica, cca, etc...)
reduction_save	Name to use for the reduction (i. e. tsne, umap, etc...)
function_use	Dimensional reduction function to call.
dims_use	Dimensions of 'reduction_use' to pass to 'function_use'

Value

Seurat object

SingleCellExperiment object

milescsmith/ReductionWrappers documentation built on March 25, 2023, 11:58 a.m.