mn_data: mn_data

In mm-shah/MetaNeighbor: Single cell replicability analysis

Description

A SummarizedExperiment object containing: a gene matrix, cell type labels, experiment labels, sets of genes, sample ID, study id and cell types.

Usage

mn_data

Format

Gene matrix

A gene-by-sample expression matrix consisting of 3157 rows (genes) and 1051 columns (cell types)

cell_labels

1051x1 binary matrix that indicates whether a cell belongs to the SstNos cell type (1=yes, 0 = no)

sample_id

A character vector of length 1051 that indicates the sample_id of each sample

study_id

A character vector of length 1051 that indicates the study_id of each sample ("GSE60361" = Zeisel et al, "GSE71585" = Tasic et al)

cell_type

A character vector of length 1051 that indicates the cell-type of each sample

Source

Dataset:https://github.com/mm-shah/MetaNeighbor/tree/master/data 1. Zeisal et al. http://science.sciencemag.org/content/347/6226/1138 2. Tasic et al. http://www.nature.com/neuro/journal/v19/n2/full/nn.4216.html

mm-shah/MetaNeighbor documentation built on May 20, 2019, 1:29 p.m.