quickAssoc {diffloop} | R Documentation

## Perform quick differential loop calling

### Description

`quickAssoc` takes a loops object and performs a basic `edgeR` association on the counts matrix and groups from `colData`

### Usage

    quickAssoc(y)

    ## S4 method for signature 'loops'
    quickAssoc(y)

### Arguments

`y` | A loops object for association

### Details

This function returns the output of fitting an edgeR model using the groups defined in `colData` for the specific loops object. The factor normalization is based on the `edgeR` model. For quick association, the number of groups is restricted to two. If a more complex group structure exists, consider using the `loopAssoc` function.

### Value

A loops object

### Examples

    # Differential loop calling between naive and primed
    rda<-paste(system.file('rda',package='diffloop'),'loops.small.rda',sep='/')
    load(rda)
    np <- loops.small[,1:4]
    assoc_np <- quickAssoc(np)

[Package diffloop version 1.16.0 Index]