Estimate cell type proportions using first PC of expression matrix
Estimate cell type proportions using first PC of expression matrix
EstimatePCACellTypeProportions(x, weighted = FALSE, w = NULL)
x |
A sample by gene bulk expression matrix. Genes should be marker genes |
weighted |
Boolean. If weighted=TRUE, multiply scaled gene expression by gene weights |
w |
Numeric vector. Weights of genes |
ret List. Attribute pcs contains matrix of PCs, where PC1 should be used as estimates for cell type abundances Attribute sdev contains eigenvalues of eigendecomposition of var-covar matrix. The 1st eigenvalue should explain most of the variance. Attribute genes contains names of genes.
Please choose more modern alternatives, such as Google Chrome or Mozilla Firefox.