MolDiaISS: The ISS data class for segmentated file

In mashranga/MolDia: Single cell In-Situ sequencing (ISS) data analysis

Description

The MolDiaISS class is a main object for all ISS based analysis. A MolDiaISS class object has the following slot

Usage

MolDiaISS

Format

An object of class MolDiaISS of length 1.

Slots

data

Main data for analysis

norm.data

Normalized data (log-scale).

scale.data

Scaled (default is z-scoring each gene) expression matrix; used for dimmensional reduction and heatmap visualization.

location

Insitu location of RCA cell location on X and Y co-ordinate.

gene

Name of genes in the data.

cluster

Cluster identification of all cells

cluster.marker

Marker gene of each cluster.

tsne.data

tSNE co-ordinate for data.

pca.data

List of stored dimmensional reductions

Dataclass

Data class section

mashranga/MolDia documentation built on May 26, 2019, 9:36 a.m.