SubsampleAndTsne {Sconify} | R Documentation

## Subsample data and run tSNE

### Description

A wrapper for Rtsne that takes final SCONE output, and runs tSNE on it after subsampling. This is specifically for SCONE runs that contain large numbers of cells that tSNE would either be too time-consuming or messy for. Regarding the latter, tSNE typically appears less clean in the range of 10^5 cells

### Usage

    SubsampleAndTsne(dat, input, numcells)

### Arguments

`dat` | tibble of original input data, and scone-based additions.
`input` | the markers used in the original knn computation, which are typically surface markers
`numcells` | the number of cells to be downsampled to

### Value

a subsampled tibble that contains tSNE values

### Examples

    SubsampleAndTsne(wand.combined, input.markers, 500)

[Package Sconify version 1.7.0 Index]