tsnehm: Compute t-SNE Heatmap

Description Usage Arguments

Description

Experimental version of t-SNE heatmaps codes

Usage

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tsnehm(data, markers, tsne_embedding, cell_labels, breaks = 100,
  plot = TRUE)

Arguments

markers

markers of interest

tsne_embedding

1D t-SNE embedding

cell_labels

Labels for each cell. Typically these are the cluster assignments for each cell, as obtained by dbscan on the 2D t-SNE. This way, the columns of the heatmap will have a color assigned to each of them, and they can be mapped to a corresponding location on the 2D t-SNE

breaks

Number of bins

plot

Logical. Whether to plot the heatmap (TRUE). If false, a list containing a matrix of the heatmap data and the column annotations (group_label) will be returned. Default is TRUE

expression_matrix

FACS data. Columns should be markers, rows are cells.


JulianSpagnuolo/FACkit documentation built on June 24, 2019, 12:18 p.m.