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| InterMineR-package | R Interface with InterMine-powered databases |
| convertToGeneAnswers | Convert InterMineR enrichment analysis results to GeneAnswers object |
| convertToGRanges | Convert InterMineR retrieved genomic information to objects of class 'GRanges' |
| convertToRangedSummarizedExperiment | Convert experimental results retrieved by InterMineR queries to an object of the 'RangedSummarizedExperiment' class |
| doEnrichment | Perform enrichment analysis |
| getDatasets | Retrieve information about the available datasets of a Mine instance. |
| getDescription | Methods for accessing 'InterMineR-class' objects. |
| getDescription-method | Methods for accessing 'InterMineR-class' objects. |
| getDescription-methods | Methods for accessing 'InterMineR-class' objects. |
| getGeneIds | Get Gene.id values for a list of gene identifiers |
| getModel | Get the model of InterMine |
| getName | Methods for accessing 'InterMineR-class' objects. |
| getName-method | Methods for accessing 'InterMineR-class' objects. |
| getName-methods | Methods for accessing 'InterMineR-class' objects. |
| getOrderBy | Methods for accessing 'InterMineR-class' objects. |
| getOrderBy-method | Methods for accessing 'InterMineR-class' objects. |
| getOrderBy-methods | Methods for accessing 'InterMineR-class' objects. |
| getRelease | Get the current release information of InterMine |
| getSelect | Methods for accessing 'InterMineR-class' objects. |
| getSelect-method | Methods for accessing 'InterMineR-class' objects. |
| getSelect-methods | Methods for accessing 'InterMineR-class' objects. |
| getTemplateQuery | Get the query contained in a template |
| getTemplates | Get the information (name and title) of the templates pre-defined in InterMine |
| getVersion | Get the version information of InterMine |
| getWhere | Methods for accessing 'InterMineR-class' objects. |
| getWhere-method | Methods for accessing 'InterMineR-class' objects. |
| getWhere-methods | Methods for accessing 'InterMineR-class' objects. |
| getWidgets | Get the widgets of InterMine |
| initInterMine | Initialize the list containing the base URL and API token. |
| InterMineR | R Interface with InterMine-powered databases |
| InterMineR-class | InterMineR class contains the input values for performing queries in an InterMine instance. |
| InterMineR-methods | Methods for accessing 'InterMineR-class' objects. |
| listDatasets | Retrieve all types of InterMine features that possess dataSets as a child_name. |
| listMines | List the available InterMine-powered databases |
| newQuery | Initialize a new list query |
| PL_DiabetesGenes | PL_DiabetesGenes data |
| PL_FlyTF_site_specific_TFs | PL_FlyTF_site_specific_TFs data |
| runQuery | Run InterMineR queries |
| runQuery-method | Run InterMineR queries |
| setConstraints | setConstraints function is used to create a new or modify an existing list of constraints |
| setQuery | Initialize a new InterMineR query or modify an existing list query |
| simplifyResult | Convert multiple values of a column into Comma-separated character strings |
| summary | Summarize InterMineR query constraints |
| summary-method | Summarize InterMineR query constraints |