CAGEr-class {CAGEr} | R Documentation

## CAGEr objects

### Description

The CAGEr package provides one classe of objects to load, contain and process CAGE data: the `CAGEexp` class, introduced 2017, which is based on the `MultiAssayExperiment` class. In comparison with the original `CAGEset` class (removed in 2021) `CAGEexp` objects benefit from a a more efficient data storage, using `DataFrame`s of run-length-encoded (`Rle`) integers, allowing for the loading and use of much larger transcriptome datasets.

### References

Haberle V, Forrest ARR, Hayashizaki Y, Carninci P and Lenhard B (2015). “CAGEr: precise TSS data retrieval and high-resolution promoterome mining for integrative analyses.” Nucleic Acids Research, 43, pp. e51., http://nar.oxfordjournals.org/content/43/8/e51

[Package CAGEr version 2.0.2 Index]