zeisel: The mouse brain single-cell dataset

In lingxuez/SOUP: Semi-soft Clustering of Single Cell Data

Description

An RNA-seq dataset published in Zeisel et al. (2015), containing 3,005 mouse brain single cells. Cells are grouped into 7 major cell types, and we retain the 16,450 genes that are expressed in at least 10 cells.

Usage

zeisel

Format

A list with three items:

cell.info

a dataframe with 3,005 rows and two columns, cell.id and cell.type.

counts

a matrix of RNA-seq counts, with 3,005 rows and 16,450 columns.

select.genes

names of the 2818 genes being selected by DESCEND and SPCA.

Source

Zeisel et al. (2015) Cell types in the mouse cortex and hippocampus revealed by single-cell RNA-seq. Science. (http://linnarssonlab.org/cortex/)

Examples

cell.info = zeisel$cell.info
counts = zeisel$counts
select.genes = zeisel$select.genes

lingxuez/SOUP documentation built on May 28, 2019, 3:38 p.m.