seqfishplus: SeqFISHplus dataset

In smfishHmrf: Hidden Markov Random Field for Spatial Transcriptomic Data

Description

Data from SeqFISH experiment on SS cortex. This is a dataset with 523 cells and the expression of about 500 spatial genes

Usage

data(seqfishplus)

Format

A list containing the following fields: y, nei, blocks, damp, mu, sigma

y

gene expression matrix

nei

cell adjacency matrix

blocks

vertex (or cell) update order; a list of vertex colors; cells marked with the same color are updated at once

damp

dampening constants (length k, the number of clusters)

mu

initialization (means). Means is a (i,k) matrix

sigma

initialization (sigmas). Sigmas is a (i,j,k) 3D matrix. k is cluster id. (i,j) is covariance matrix

References

\insertRef

Eng2019smfishHmrf

Examples

data(seqfishplus)

smfishHmrf documentation built on Jan. 13, 2021, 12:54 p.m.