cell_data_set: The cell_data_set class

In cole-trapnell-lab/monocle3: Clustering, Differential Expression, and Trajectory Analysis for Single-Cell RNA-Seq

The cell_data_set class

Description

The main class used by Monocle3 to hold single-cell expression data. cell_data_set extends the Bioconductor SingleCellExperiment class.

Details

This class is initialized from a matrix of expression values along with cell and feature metadata.

Fields

reduce_dim_aux

SimpleList, auxiliary information from reduced dimension.

principal_graph_aux

SimpleList, auxiliary information from principal graph construction

principal_graph

SimpleList of igraph objects containing principal graphs for different dimensionality reduction.

clusters

SimpleList of cluster information for different dimensionality reduction.

cole-trapnell-lab/monocle3 documentation built on June 11, 2025, 11:22 p.m.