mapGeneInfo {marray} | R Documentation

## Creating URL strings for external database links

### Description

These functions are used with `htmlPage`. The function `mapGeneInfo`, takes all the arguments and generate a character matrix of two columns. The first columns representing the name of the argument and the second columns represents the value of an argument. The function `widget.mapGeneInfo` allows the user to enter this information interactively.

### Usage

    mapGeneInfo(widget = FALSE, Gnames, Name = "pubmed", ID =
                     "genbank", ACC = "SMDacc", ...)
    widget.mapGeneInfo(Gnames)

### Arguments

`widget` | A logical value specifying if widgets should be used.
`Name` | The external database for spot description, E.g. "pubmed".
`ID` | The external database for spot ID, E.g. "operon", "Riken", "locuslink".
`ACC` | The external database for gene accession number, E.g. "genebank".
`Gnames` | An object of class `matrix`, `data.frame` or `marrayInfo` which contains description of spotted probe sequences.
`...` | Other column names

### Details

The function `mapGeneInfo` generates a character matrix with the first column representing the column headings of "Gnames" and the second column representing the corresponding names in the list `URLstring`. For example, if a particular column in "Gnames" with column names "ID" contains genebank accession number, then the function `mapGeneInfo` generates a row containing "ID" in the first column and "genbank" in the second. Examples are `SFGL` and `UCBFGL`.

`URLstring` is a list contains the URL to various external database, E.g. operon, Riken, genbank.
The current choices are: "pubmed", "locuslink", "riken", "SMDclid", "SMDacc", "operonh2", "operonh1" , "operonm2", "operonm1" and "genbank" . "SMDclid" and "SMDacc" are links to Stanford Microarray Databases.

### Author(s)

Jean Yee Hwa Yang

### Examples

     mapGeneInfo(ID="genebank", ll="locuslink")
     mapGeneInfo(ID="locuslink", Sample.ID="riken")

[Package marray version 1.70.0 Index]