decon.cell.props: decon.cell.props

In ERGlass/lrcde.dev: Linear Regression Cell Type-Specific Differential Expression Power Analysis

Description

Function to estimate cell proportions given hetergenous gene expression matrix and cell type-specific gene expression signatures.

Usage

decon.cell.props(het.sub, cell.sigs)

Arguments

het.sub	heterogeneous gene expression matrix, _n_ samples by _m_ genes (rows by columns). Required. Note that only a subset of heterogeneous measres is used, with the same number and order of genes as in the cell signature matrix
cell.sigs	cell-specific gene expression signatures, _p_ cell types by _m_ genes (rows by columns). Required. Note that both heterogeneous matrix and cell signature matrix should be on the same scale, e.g. log2 or decimal

Value

estimated cell proportions, _n_ samples by _m_ cell types (rows by columns)

Author(s)

Edmund R Glass, [e-mail], Mikhail G Dozmorov, [e-mail]

References

https://github.com/ERGlass/lrcde.dev

Examples

## Not run: 
# Loads the heterogeneous matrix (subset) and cell signatures
data("lrcde.demo") # Included in the LRCDE package
# Estimate cell proportions. 
cell.props <- decon.cell.props(het.mtx, cell.sigs)

## End(Not run)

ERGlass/lrcde.dev documentation built on May 6, 2019, 3:09 p.m.