sampleObj: Sample dataset to test GeneNMF installation

In GeneNMF: Non-Negative Matrix Factorization for Single-Cell Omics

Sample dataset to test GeneNMF installation

Description

A Seurat object containing single-cell transcriptomes (scRNA-seq) for 50 cells and 20729 genes. Single-cell UMI counts were normalized using a standard log-normalization: counts for each cell were divided by the total counts for that cell and multiplied by 10,000, then natural-log transformed using 'log1p'.

This a subsample of 25 predicted B cells and 25 predicted NK cells from the large scRNA-seq PBMC dataset published by Hao et al. (\Sexpr[results=rd]{tools:::Rd_expr_doi("10.1016/j.cell.2021.04.048")}) and available as UMI counts at https://atlas.fredhutch.org/data/nygc/multimodal/pbmc_multimodal.h5seurat

Usage

sampleObj

Format

A sparse matrix of 50 cells and 20729 genes.

Source

\Sexpr[results=rd]{tools:::Rd_expr_doi("10.1016/j.cell.2021.04.048")}

GeneNMF documentation built on April 4, 2025, 4:39 a.m.