estimateRho: Helper function for estimating the dispersion factor rho
In deepSNV: Detection of subclonal SNVs in deep sequencing data.
Description
Usage
Arguments
Value
Note
Author(s)
View source: R/shearwater-functions.R
Description
It uses a method of moments approximation to estimate rho from the variances of the relative frequencies nu across samples
Usage
1
estimateRho(x, mu, ix, pseudo.rho = .Machine$double.eps)
Arguments
x
counts
mu
relative frequency across all samples
ix
index indicating the set of samples to use (typically indicating those with relative frequency smaller than 0.1).
pseudo.rho
a pseudo count added to each sample to avoid problems with zeros. Default = .Machine$double.eps
Value
rho
Note
Experimental code, subject to changes
Author(s)
mg14
deepSNV documentation built on Nov. 8, 2020, 8:01 p.m.
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Description Usage Arguments Value Note Author(s)
View source: R/shearwater-functions.R
Description
It uses a method of moments approximation to estimate rho from the variances of the relative frequencies nu across samples
Usage
1 | estimateRho(x, mu, ix, pseudo.rho = .Machine$double.eps)
|
Arguments
x |
counts |
mu |
relative frequency across all samples |
ix |
index indicating the set of samples to use (typically indicating those with relative frequency smaller than 0.1). |
pseudo.rho |
a pseudo count added to each sample to avoid problems with zeros. Default = .Machine$double.eps |
Value
rho
Note
Experimental code, subject to changes
Author(s)
mg14
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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