pratio {MBttest} | R Documentation

## Calculation of Psi(ψ)

### Description

Psi is also called polar ratio.

ψ = max(\frac{min(X_A)}{max(X_B)+1},\frac{min(X_B)}{max(X_A)+1})

.

### Usage

    pratio(xx, na, nb)

### Arguments

`xx` | count data of RNA reads generated by next generation sequencing.
`na` | number of replicate libraries in condition A.
`nb` | number of replicate libraries in condition B.

### Details

Psi is defined as

ψ = max(\frac{min(X_A)}{max(X_B)+1},\frac{min(X_B)}{max(X_A)+1})

It is used to measure overlap of two subdatasets. ψ>1, these two subdatasets have a gap, not overlap. ψ<1 indicates that two subdatasets overlap.

### Value

`pratio` | pratio list

### Author(s)

Yuan-De Tan tanyuande@gmail.com

### References

Yuan-De Tan Anita M. Chandler, Arindam Chaudhury, and Joel R. Neilson(2015) A Powerful Statistical Approach for Large-scale Differential Transcription Analysis. Plos One. 2015 DOI: 10.1371/journal.pone.0123658.

### See Also

`mbetattest`, `oddratio`

### Examples

    XX<-matrix(NA,2,8)
    XX[1,]<-c(112,122, 108,127,302, 314, 322, 328)
    XX[2,]<-c(511, 230, 754, 335,771, 842, 1014,798)
    #XX
    #     [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8]
    #[1,]  112  122  108  127  302  314  322  328
    #[2,]  511  230  754  335  771  842 1014  798
    pratio(xx=XX,na=4,nb=4)

[Package MBttest version 1.20.0 Index]