lung10Xmca1: Lung scRNA-Seq atlas 10X from Mouse Cell Atlas-1

In aet21/EpiSCORE: Epigenetic cell-type deconvolution with Single-Cell Omic References

Lung scRNA-Seq atlas 10X from Mouse Cell Atlas-1

Description

The data has been log2-normalized with a pseudocount of 1, so that zeroes correspond to zero mapped reads. The integer cell-type index vector annotates each cell/column to a cell-type, with 1,2,3 and 4 indicating epithelial, endothelial, fibrobast and immune cell, respectively.

Usage

data(lung10Xmca1)

Format

Contains a reduced subset of the normalized 10X lung atlas from MCA1 with rows labeling 15845 genes and columns labeling 196 cells (49 of each cell-type), and an integer cell-type index vector.

Details

Upon loading the data object, we find the following:

• lung10Xmca1.m: a reduced subset of the full 10X scRNAseq set

• celltype10X.idx: an integer cell-annotation index vector. Cell-types are annotated as in lungSS2mca1

References

Teschendorff AE, Zhu T, Breeze CE, Beck S. Cell-type deconvolution of bulk tissue DNA methylomes from single-cell RNA-Seq data Genome Biol.2020

aet21/EpiSCORE documentation built on June 26, 2022, 5:50 p.m.