createFromSeurat {scTreeViz} | R Documentation |
Creates a 'TreeViz' object from 'Seurat'
createFromSeurat( object, check_metadata = FALSE, col_regex = "*snn*", columns = NULL, reduced_dim = c("TSNE") )
object |
'Seurat' class containing cluster information at different resolutions |
check_metadata |
whether to metaData of 'Seurat' object for cluster information or not |
col_regex |
common regular expression shared across all columns with cluster information |
columns |
vector containing columns with cluster information |
reduced_dim |
Vector of Dimensionality reduction information provided in 'Seurat' object to be added in 'TreeViz' (if exists) |
'TreeViz' Object
library(Seurat) data(pbmc_small) pbmc <- pbmc_small treeviz<- createFromSeurat(pbmc, check_metadata = TRUE, reduced_dim = c("pca","tsne"))