proteome.example {dagLogo} | R Documentation

## An object of `Proteome-class` representing the subset of Drosophila melanogaster proteome.

### Description

The subset `Proteome-class` of fruit fly.

### Usage

    proteome.example

### Format

An object of `Proteome-class` for fly subset proteome. The format is: A list with one data frame and an character.

*‘proteome': ’data.frame': 1406 obs. of 4 variables *‘type': ’character': "UniProt" *‘species': ’character': "Drosophila melanogaster"

The format of proteome is

*'ENTREZ_GENE': a character vector, records entrez gene id *'SEQUENCE': a character vector, peptide sequences *'ID': a character vector, Uniprot ID *'LEN': a character vector, length of peptides

### Details

used as an example dataset

Annotation data obtained by:

library(UniProt.ws)

taxId(UniProt.ws) <- 7227

proteome <- prepareProteome(UniProt.ws)

proteome@proteome <- proteome@proteome[sample(1:19902, 1406), ]

### Source

http://www.uniprot.org/

### Examples

    data(proteome.example)
    head(proteome.example@proteome)
    proteome.example@type

[Package dagLogo version 1.26.2 Index]