CQC {HiTC} | R Documentation

## Quality Control for high-throughput 'C' experiment

### Description

Quality Control for high-throughput 'C' experiment

### Usage

    CQC(x,  cis.trans.ratio = TRUE, hist.interac=TRUE, scat.interac.dist=TRUE,
    hist.dist=TRUE, trim.range=0.98, winsize=NA, dev.new=TRUE)

### Arguments

`x` | object that inherits from class `HTCexp` or `HTClist`
`cis.trans.ratio` | logical; barplot of percentage of inter-intrachromsomal interactions
`hist.interac` | logical; histogram of the interaction frequency
`scat.interac.dist` | logical; scatter plot of interaction count versus the genomic distance between two elements
`hist.dist` | logical; histogram of the distance between the 'x' and 'y' intervals
`trim.range` | remove the extreme values by trimming the counts. Only use for plotting functions. [0,1]
`winsize` | used for the scat.interac.dist. If specify, the data are windowed before plotting
`dev.new` | if true, each graphs is plotted in a new device

### Details

If `x` is a `HTClist` object, all `HTCexp` objects are merged. The zero values are not used to compute the descriptive statistics and to display the data. If `trim.range` are lower than 1. The highest values (quantile probability is equal to `trim.range`) are discarded.

### Value

Create quality plots and return a `matrix` with some simple statistics on all, cis and trans data.

### Author(s)

N. Servant, B. Lajoie

### See Also

`HTCexp-class`

### Examples

    data(Nora_5C)

    ## Quality Control
    CQC(E14)

[Package HiTC version 1.26.0 Index]