getDatasets {InterMineR} | R Documentation

## Retrieve information about the available datasets of a Mine instance.

### Description

This function retrieves information about the available datasets of a mine instance. It is necessary to specify the type of feature (e.g. Gene, TFBindingSite) for this mine, and a value of this feature OR of one of its child_name values.

### Usage

    getDatasets(
      im,
      type,
      child_name,
      value,
      op
    )

### Arguments

`im` | a list containing the base URL and API token.
`type` | a character string defining the type of feature for which the information about the available datasets will be retrieved. Use the `listDatasets` function to retrieve types with available datasets on each mine.
`child_name` | a character string defining the child_name values of type, which will be used to retrieve the information about the available datasets. Use `getModel` function to retrieve the available child_name values for each type.
`value` | a character string defining the value of the child_name.
`op` | a character string defining the op argument.

### Details

The getDatasets function uses an InterMineR query to retrieve the information of the available datasets for:

1. a specific mine (e.g. FlyMine)

2. a specific type of feature (e.g. Gene, TFBindingSite) for this mine, and

3. a specific value of this feature OR of one of its child_name values.

For all genes of Drosophila melanogaster (Gene.organism = Drosophila melanogaster) OR for a specific gene (Gene LOOKUP PPARG)

### Value

a data.frame containing information about about the available datasets for a specific type of feature (e.g. Gene) on a specific mine instance (HumanMine, FlyMine, etc.).

### Author(s)

InterMine Team

### See Also

`listDatasets`, `getModel`

### Examples

    # Define mines
    im.fly = initInterMine(listMines()["FlyMine"])
    im.human = initInterMine(listMines()["HumanMine"])

    # get information about all available datasets of Drosophila melanogaster genes
    dme_gene_datasets = getDatasets(
      im = im.fly,
      type = "Gene",
      child_name = "organism.name",
      value = "Drosophila melanogaster",
      op = "="
    )

    # get available datasets for PPARG gene from FlyMine
    pparg_related = getDatasets(
      im = im.fly,
      type = "Gene",
      value = "PPARG",
      op = "LOOKUP"
    )

    # get available datasets for PPARG gene from HumanMine
    pparg_related.2 = getDatasets(
      im = im.human,
      type = "Gene",
      value = "PPARG",
      op = "LOOKUP"
    )

[Package InterMineR version 1.4.1 Index]