| seqfishplus {smfishHmrf} | R Documentation |
SeqFISHplus dataset
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
Eng CL, Lawson M, Zhu Q, Dries R, Koulena N, Takei Y, Yun J, Cronin C, Karp C, Yuan G, Cai L (2019-Apr-01). “Transcriptome-scale super-resolved imaging in tissues by RNA seqFISH+.” Nature, 568, 235–239. doi: 10.1038/s41586-019-1049-y.
Examples
data(seqfishplus)