recoup_test_data {recoup} | R Documentation

## Reference and genomic sample regions for recoup testing

### Description

The testing data package containes a small gene set, a design data frame, some genomic regions and an input object for testing of recoup with ChIP-Seq and RNA-Seq data. Specifically:

- `test.input`: A small data set which contains 10000 reads from H4K20me1 ChIP-Seq data from WT adult mice and Set8 (Pr-Set7) KO mice. The tissue is liver.

- `test.genome`: A small gene set (100 genes) and their coordinates from mouse mm9 chromosome 12.

- test.design: A data frame containing the 100 above genes categorized according to expression and strand.

- test.exons: A `GRangesList` containing the exons of the 100 above genes for use with `recoup` RNA-Seq mode.

### Format

`data.frame` and `list` objects whose format is accepted by recoup.

### Author(s)

Panagiotis Moulos

### Source

Personal communication with the Talianids lab at BSRC 'Alexander Fleming'. Unpublished data.

[Package recoup version 1.12.0 Index]