fitInfo {XBSeq} | R Documentation

## Accessor function for the fitInfo objects in a XBSeqDataSet

### Description

Same method is adopted from DESeq to access the fit information from a XBSeqDataSet

### Usage

    fitInfo( object, name)

### Arguments

`object` | a XBSeqDataSet
`name` | if `estimateSCV` was called with `method="per-condition"` a name hasd to specified. Try `ls(XB@fitInfo`.

### Value

A list containing fitting information for a XBSeqDataSet object:

`perGeneSCVEsts` | SCV estimates for each gene, which has the same length as the number of rows as the assay elements in an object
`SCVFunc` | The function used to predict the fitted SCV
`fittedSCVEsts` | The fitted SCV estimates for each gene, which is of the same length as perGeneSCVEsts
`df` | Integer value indicating the degree of freedom
`sharingMode` | The sharing mode argument specified by the user

### Author(s)

Yuanhang Liu

### References

H. I. Chen, Y. Liu, Y. Zou, Z. Lai, D. Sarkar, Y. Huang, et al., "Differential expression analysis of RNA sequencing data by incorporating non-exonic mapped reads," BMC Genomics, vol. 16 Suppl 7, p. S14, Jun 11 2015.

### See Also

`estimateSCV`, `XBSeqDataSet`

### Examples

       conditions <- factor(c(rep('C1', 3), rep('C2', 3)))
       data(ExampleData)
       XB <- XBSeqDataSet(Observed, Background, conditions)
       XB <- estimateRealCount(XB)
       XB <- estimateSizeFactors(XB)
       XB <- estimateSCV(XB, fitType='local')
       str(fitInfo(XB))

[Package XBSeq version 1.19.0 Index]