escoEstBCV: Estimate esco Biological Coefficient of Variation parameters
In JINJINT/splattermodify: Simple Simulation of Single-cell RNA Sequencing Data

Description Usage Arguments Details Value

Parameters are estimated using the estimateDisp function in the edgeR package.

1	escoEstBCV(counts, norm.counts, params, cellinfo = NULL)

`counts`	counts matrix to estimate parameters from.
`norm.counts`	normalized counts matrix to estimate parameters from.
`params`	`escoParams` object to store estimated values in.
`cellinfo`	info about the identity of each cell in the cell structure. If cellinfo is not null, then BCV is estiamted adjusted to the cell structures

The estimateDisp function is used to estimate the common dispersion and prior degrees of freedom. See estimateDisp for details. When estimating parameters on simulated data we found a broadly linear relationship between the true underlying common dispersion and the edgR estimate, therefore we apply a small correction, disp = 0.1 + 0.25 * edgeR.disp.

escoParams object with estimated values.

JINJINT/splattermodify documentation built on May 19, 2021, 4:05 p.m.