Expanded Example Seurat Object for Testing (100 genes)

A simulated Seurat object built from synthetic_test_matrix_100 and synthetic_test_metadata. It is the 100-gene counterpart of synthetic_test_object and is structurally identical except for the larger gene panel. The original 18 Wnt genes and their expression values are fully preserved.

Usage

synthetic_test_object_100

Format

A Seurat object containing:

assays

A single RNA assay storing the 100 × 2000 count matrix (synthetic_test_matrix_100).

meta.data

Cell-level metadata with four columns: orig.ident, nCount_RNA, nFeature_RNA, and genotype (WT vs. Mutant). See synthetic_test_metadata.

features

100 genes: 18 original Wnt genes (rows 1–18) plus 82 randomly expressed genes from housekeeping, cell-cycle, TF, Notch, MAPK/ERK, TGF-β/BMP, and adhesion panels (rows 19–100).

cells

2000 cells named "Cell1" … "Cell2000".

Source

Expanded from synthetic_test_object for demonstration purposes.

Details

Created with CreateSeuratObject(min.cells = 0, min.features = 0) so every gene and cell in the underlying matrix is retained. Compatible with Seurat v4 and v5 (SeuratObject >= 4.1).

See also

synthetic_test_object, synthetic_test_matrix_100,

Examples

data(synthetic_test_object_100)
synthetic_test_object_100
#> Loading required package: SeuratObject
#> Warning: package ‘SeuratObject’ was built under R version 4.4.3
#> Loading required package: sp
#> Warning: package ‘sp’ was built under R version 4.4.3
#> 
#> Attaching package: ‘SeuratObject’
#> The following objects are masked from ‘package:base’:
#> 
#>     intersect, t
#> An object of class Seurat 
#> 100 features across 2000 samples within 1 assay 
#> Active assay: RNA (100 features, 0 variable features)
#>  3 layers present: counts, data, scale.data
Seurat::Idents(synthetic_test_object_100) <- "genotype"
table(Seurat::Idents(synthetic_test_object_100))  # 1000 WT, 1000 Mutant
#> 
#>     WT Mutant 
#>   1000   1000