estDisp {RCM} | R Documentation

## Estimate the overdispersion

### Description

Estimate the overdispersion

### Usage

    estDisp(
      X,
      cMat = NULL,
      rMat = NULL,
      muMarg,
      psis,
      trended.dispersion = NULL,
      prior.df = 10,
      dispWeights = NULL,
      rowMat = NULL,
      allowMissingness = FALSE,
      naId
    )

### Arguments

`X` | the data matrix of dimensions nxp
`cMat` | a 1xp colum scores matrix
`rMat` | a nx1 rowscores matrix, if unconstrained
`muMarg` | an nxp offset matrix
`psis` | a scalar, the current psi estimate
`trended.dispersion` | a vector of length p with pre-calculated trended.dispersion estimates. They do not vary in function of the offset anyway
`prior.df` | an integer, number of degrees of freedom of the prior for the Bayesian shrinkage
`dispWeights` | Weights for estimating the dispersion in a zero-inflated model
`rowMat` | matrix of row scores in case of constrained ordination
`allowMissingness` | A boolean, are missing values present
`naId` | The numeric index of the missing values in X

### Details

Information between taxa is shared with empirical Bayes using the edgeR pacakage, where the time-limiting steps are programmed in C.

### Value

A vector of length p with dispersion estimates

[Package RCM version 1.6.0 Index]