| ArrayExpressHTS | ExpressionSet for RNA-Seq experiment submitted in... |
| ArrayExpressHTSFastQ | ExpressionSet for RNA-Seq raw data files |
| isRCloud | Check the code is running on R-Cloud |
| package-options | Functions to work with package level options |
| prepareAnnotation | Prepare annotation data for the RNA-Seq Pipeline |
| prepareReference | Prepare reference data for the RNA-Seq Pipeline |
| processing-options | Functions to work with ArrayExpressHTS processing options |
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