get.significant.pairs {cobindR} | R Documentation

## function to returns the results of detrending as a data.frame

### Description

get.significant.pairs returns a data.frame of observed distances between the specified pair of PWMs in the foreground set of the sequences as well as the background set of sequences. The distance distribution for the pair in the background is used for detrending.

### Usage

    ## S4 method for signature 'cobindr'
    get.significant.pairs(x, pwm1, pwm2, bin_length=20, z_value=3, overlap=0, abs.distance=FALSE)

### Arguments

`x` | an object of the class "cobindr", which will hold all necessary information about the sequences and the hits.
`pwm1` | name of the first PWM
`pwm2` | name of the second PWM
`bin_length` | defines size of bins for distance analysis, default value is 20nucleotides
`z_value` | level of significance
`overlap` | number of nucleotides which are allowed for an overlap
`abs.distance` | logical flag

### Author(s)

Stefan Kroeger <kroeger@informatik.hu-berlin.de>

### See Also

`plot.detrending`, `get.pairs`, `find.pairs`

[Package cobindR version 1.18.0 Index]