yeastAnno {Genominator} | R Documentation

## Example datasets from Genominator

### Description

3 example datasets from Genominator; 2 contain annotation information from yeast and 1 contain actual data from yeast as well. A bigger dataset is available in the experimental data package `yeastRNASeq`.

### Usage

    data(yeastAnno)
    data(yeastAnno.sources)
    data(chr1_yeast)

### Format

`yeastAnno` is a data frame with 7124 observations on the following 5 variables: `chr`, `start`, `end`, `strand`, `gene_biotype`.

`yeastAnno.sources` is a list with four components names `ensembl.gene`, `ensembl.transcript`, `ucsc.sgdGene`, `ucsc.ensGene` containing annotation on yeast from 2 different sources (Ensembl and UCSC), each sources has two different queries (one gene-level, one transcript-level). The annotation was obtained in January 2010 and should not be used for analysis.

`chr1_yeast` is a data frame containing mock data in yeast from two different samples (labelled `mRNA_1` and `mRNA_2`), linked to distinct genomic locations. There may be several data values linked to each genomic location.

### Source

Ensembl and UCSC January 2010.

### See Also

There is a discussion of the `yeastAnno.sources` in the `withShortRead` vignette.

### Examples

    data(yeastAnno)
    head(yeastAnno)
    data(yeastAnno.sources)
    names(yeastAnno.sources)
    head(yeastAnno.sources$ensembl.gene)
    data(chr1_yeast)
    head(chr1_yeast)

[Package Genominator version 1.34.0 Index]