scde (version 2.0.1)

scde.expression.magnitude: Return scaled expression magnitude estimates

Description

Return point estimates of expression magnitudes of each gene across a set of cells, based on the regression slopes determined during the model fitting procedure.

Usage

scde.expression.magnitude(models, counts)

Arguments

models

models determined by scde.error.models

counts

count matrix

Value

• a matrix of expression magnitudes on a log scale (rows - genes, columns - cells)

Examples

data(es.mef.small)
cd <- clean.counts(es.mef.small, min.lib.size=1000, min.reads = 1, min.detected = 1)
data(o.ifm)  # Load precomputed model. Use ?scde.error.models to see how o.ifm was generated
# get expression magnitude estimates
lfpm <- scde.expression.magnitude(o.ifm, cd)