03/07/2021
Series
- Contents
- Series
- Advanced Options
| Legend | Name | Description |
|---|---|---|
| A | Loading methods | Presents three alternatives to obtain the input data. These methods are also applicable for GPL and Raw data obtention. |
| B | Web Download | Load the entire dataset from the internet identified by a GSE or GDS code from the GEO datasets |
| C | Local File | Loads the data from a file located in a specific directory. Files compressed as TAR or GZip are also accepted |
| D | Library File | Choose one of the datasets among the saved library data. If the input dataset is available in multiple formats (e.g. SOFT or RAW), one of these format has to be chosen by the user |
| E | Load Probe Information (GPL) | Loads the additional attribute columns that describe each the microarray probes. This option also loads the Platform metadata from Web or Library when checking these options. |
| F | Analyze RAW Data | Indicates preference for analyzing RAW data. It also determines the obtention method for probe-level annotations and package dependencies |
| G | Advanced options for data obtention | Opens a pop-up with additional options to load arrays from specific manufacturers |
| H | Reload | Restores the checked files from the last session and displays the available options to reload them |
| I | Load | Begins the pre-analysis with the user-defined parameters. |
Advanced Options
| Legend | Name | Description |
|---|---|---|
| A | Allow CDF Package Download | When loading Affymetrix datasets in their RAW format, a CDF package may be required. This option will include the respective package in the download queue (e.g. "hgu133plus2cdf" for HG-U133 Plus 2). Note that this option will be ignored if the "Web" load method is not marked for RAW analysis. |
| B | Allow Probe Sequences Download | When loading Affymetrix datasets in their RAW format, this option will include the "probe" package in the download queue (e.g. "hgu133plus2probe" for HG-U133 Plus 2), which is required for GC-RMA and Plier options of statistical treatment. Note that this option will be ignored if the "Web" load method is not marked for RAW analysis. |
Remarks
If the data is being loaded from the Web, the untreated format will be downloaded instead of the author.