getUMAP: Get UMAP data and plot from Seurat object.
In NMikolajewicz/scMiko: scRNAseq analysis functions. Developed using Seurat framework.
View source: R/utility_functions.R
getUMAP R Documentation
Get UMAP data and plot from Seurat object.
Description
Get UMAP data and plot from Seurat object.
Usage
getUMAP(
object,
umap.key = "umap",
node.type = "point",
meta.features = colnames(object@meta.data),
size = autoPointSize(ncol(object)),
...
)
Arguments
object
Seurat Object.
umap.key
Character UMAP key slot in seurat object. Default is "umap"
node.type
"point" or "text"
meta.features
character vector specifying which meta features to retrieve. Default is 'colnames(object@meta.data)'
...
additional parameters to geom_point or geom_text
Value
list containing UMAP data.frame and ggplot handle
Author(s)
Nicholas Mikolajewicz
Examples
wnnUMAP.list <- getUMAP(so.gene, umap.key = "wnn.umap", node.type = "text")
df.wnn.umap <- wnnUMAP.list$df.umap
plt.wnn.umap <- wnnUMAP.list$plt.umap
NMikolajewicz/scMiko documentation built on June 28, 2023, 1:41 p.m.
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View source: R/utility_functions.R
| getUMAP | R Documentation |
Get UMAP data and plot from Seurat object.
Description
Get UMAP data and plot from Seurat object.
Usage
getUMAP(
object,
umap.key = "umap",
node.type = "point",
meta.features = colnames(object@meta.data),
size = autoPointSize(ncol(object)),
...
)
Arguments
object |
Seurat Object. |
umap.key |
Character UMAP key slot in seurat object. Default is "umap" |
node.type |
"point" or "text" |
meta.features |
character vector specifying which meta features to retrieve. Default is 'colnames(object@meta.data)' |
... |
additional parameters to geom_point or geom_text |
Value
list containing UMAP data.frame and ggplot handle
Author(s)
Nicholas Mikolajewicz
Examples
wnnUMAP.list <- getUMAP(so.gene, umap.key = "wnn.umap", node.type = "text")
df.wnn.umap <- wnnUMAP.list$df.umap
plt.wnn.umap <- wnnUMAP.list$plt.umap
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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