dot-embedSamples_def: DEF: Spectral embedding of samples

In dcellwanger/CellTrails: Reconstruction, visualization and analysis of branching trajectories

Description

For details see embedSamples

Usage

.embedSamples_def(x, nbins = 10, sigma = 0.75, design = NULL)

Arguments

x	A numerical matrix
nbins	Cubic B-spline discretization is used to compute fuzzy mutual information between pairs of samples; nbins defines the number of intervals used for discretization of expression data. (default: 10)
sigma	The mutual information matrix is transformed to an adjacency matrix using a heat kernel; sigma defines the radius of heat kernel (in quantiles; default: sigma = 0.75 which is the third quantile of the mutual information matrix).
design	A numeric matrix describing the factors that should be blocked

Author(s)

Daniel C. Ellwanger

dcellwanger/CellTrails documentation built on May 12, 2020, 2:01 a.m.