FANTOM5humanSamples {CAGEr} | R Documentation

## List of FANTOM5 human CAGE samples

### Description

This is a `data.frame` object that contains information about all human primary cell, cell line and tissue CAGE datasets (988 datasets) produced by FANTOM5 constortium, which are available for import with `CAGEr`. The list containes all samples published in the main FANTOM5 publication (Forrest et al. Nature 2014) as presented in the Supplementary Table 1. The columns provide the following information:
`sample`: name/label of individual sample, which can be used as `sample` argument in the `importPublicData` function to retrieve specified sample.
`type`: type of the sample, either `"cell line"`, `"primary cell"` or `"tissue"`.
`description`: description of individual sample as provided by the FANTOM5 consortium.
`library_id`: unique ID of the CAGE library as provided by the FANTOM5 consortium.
`data_url`: URL to gzip-ed TSS file at online FANTOM5 data resource, which is used by `importPublicData` to fetch given sample.

### Usage

    data(FANTOM5humanSamples)

### Format

A `data.frame` object

[Package CAGEr version 1.28.0 Index]