| SimData {jrSiCKLSNMF} | R Documentation |
A simulated dataset for use with jrSiCKLSNMF
Description
A simulated dataset with \mathcal{U}(1,1.25) multiplicative noise for the
scRNA-seq variability parameter in SPARSim for the simulated scRNA-seq data and
with \mathcal{N}(-0.25,0.25) additive noise to the expression levels of the scATAC-seq data
for data simulated via SimATAC. The simulated matrices are located in SimData$Xmatrices
and the identities for the cell types are contained in SimData$cell_type. This corresponds
to the Xmatrix data found in both
XandLmatrices25/XandindividLKNNLmatrices1Sparsity5.RData and
XandBulkLmatrix25/XandBulkLKNNmatrices1Sparsity5.RData on our Github
ellisdoro/jrSiCKLSNMF_Simulations
Usage
data(SimData)
Format
A list made up of a two items. The first is list of 2 simulated sparse matrices and the second is a vector containing cell identities.
- Xmatrices
A list of 2 sparse matrices, each containing a different simulated omics modality measured on the same set of single cells: the first entry in the list corresponds to simulated scRNA-seq data and has 1000 genes and 300 cells; the second entry in the list corresponds to simulated scATAC-seq data and has 5910 peaks and 300 cells.
- cell_type
A vector containing the cell-type identities of the simulated data