seuratIntegration {singleCellTK} | R Documentation

## seuratIntegration A wrapper function to Seurat Batch-Correction/Integration workflow.

### Description

seuratIntegration A wrapper function to Seurat Batch-Correction/Integration workflow.

### Usage

    seuratIntegration(
      inSCE,
      useAssay = "counts",
      batch,
      newAssayName = "SeuratIntegratedAssay",
      kAnchor,
      kFilter,
      kWeight,
      ndims = 10
    )

### Arguments

`inSCE` | Input `SingleCellExperiment` object that contains the assay to batch-correct.
`useAssay` | Assay to batch-correct.
`batch` | Batch variable from `colData` slot of `SingleCellExperiment` object.
`newAssayName` | Assay name for the batch-corrected ouput assay.
`kAnchor` | Number of neighbours to use for finding the anchors in the FindIntegrationAnchors function.
`kFilter` | Number of neighbours to use for filtering the anchors in the FindIntegrationAnchors function.
`kWeight` | Number of neighbours to use when weigthing the anchors in the IntegrateData function.
`ndims` | Number of dimensions to use. Default `10`.

### Value

A `SingleCellExperiment` object that contains the batch-corrected assay inside the `altExp` slot of the object

[Package singleCellTK version 2.0.0 Index]