Edge Rank Plot

Plots the number of edges/molecules per component against the component rank

Usage

MoleculeRankPlot(object, ...)

# S3 method for class 'data.frame'
MoleculeRankPlot(object, group_by = NULL, ...)

# S3 method for class 'Seurat'
MoleculeRankPlot(object, group_by = NULL, ...)

Arguments

object

A data.frame-like object or a Seurat object

...

Parameters passed to other methods

group_by

A character specifying a column to group by

Value

A ggplot object

Examples

library(pixelatorR)

# Load example data as a Seurat object
pxl_file_mpx <- minimal_mpx_pxl_file()
pxl_file_pna <- minimal_pna_pxl_file()

seur_obj_mpx <- ReadMPX_Seurat(pxl_file_mpx)
#> ✔ Created a 'Seurat' object with 5 cells and 80 targeted surface proteins
seur_obj_mpx
#> An object of class Seurat 
#> 80 features across 5 samples within 1 assay 
#> Active assay: mpxCells (80 features, 80 variable features)
#>  2 layers present: counts, data

# Plot with data.frame
MoleculeRankPlot(seur_obj_mpx[[]])


library(pixelatorR)

# Plot with Seurat object
MoleculeRankPlot(seur_obj_mpx)


# Plot with Seurat object containing PNA data
seur_obj_pna <- ReadPNA_Seurat(pxl_file_pna)
#> ✔ Created a <Seurat> object with 5 cells and 158 targeted surface proteins
MoleculeRankPlot(seur_obj_pna)