summariseChrExpr {CAGEr} | R Documentation

## Expression levels by chromosomes

### Description

Counts the number of molecules detected per chromosome, normalises by library size and stores the raw and normalised results in the `CAGEr` object.

### Usage

    summariseChrExpr(object)

    ## S4 method for signature 'CAGEexp'
    summariseChrExpr(object)

### Arguments

`object` | A `CAGEexp` object (`CAGEset` objects are not supported).

### Value

Modifies the `CAGEexp` by adding a “seqNameTotals” experiment containing matrices where rows represent chromosomes and columns represent samples.

### Author(s)

Charles Plessy

### See Also

seqNameTotals

Other CAGEr object modifiers: `CTSStoGenes`, `CustomConsensusClusters`, `aggregateTagClusters`, `annotateCTSS`, `clusterCTSS`, `cumulativeCTSSdistribution`, `getCTSS`, `normalizeTagCount`, `quantilePositions`

### Examples

    summariseChrExpr(exampleCAGEexp)

[Package CAGEr version 1.28.0 Index]