1 | Simplified Process for Running Tab2Mage Importer on a new BASE Installation |
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2 | ============================================================ |
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3 | |
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4 | AFFYMETRIX |
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5 | -------------------- |
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6 | - Install a new base instance |
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7 | |
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8 | - log in as root and create an administrator account, |
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9 | |
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10 | - log into base as the administrator, using the newly created account |
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11 | |
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12 | - go to Administrate -> Plugins -> Definitions |
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13 | Click New to create the Affymetrix Array Design Batch Importer Plugin. Follow further instructions on : plugin website if required. |
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14 | |
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15 | - go to View - > File |
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16 | upload zip files containing all the array design for affymetrix experiments |
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17 | |
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18 | - go to LIMS -> Array Designs -> |
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19 | click on the import tab |
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20 | on the dialog, select affymetrix array design batch importer and follow the process through to finish |
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21 | all the array deisgn are created. |
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22 | |
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23 | - go to Administrate -> Plugins -> Definitions |
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24 | Click New to create, share and configure the Annotation Types and Cv Loader Plugin. |
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25 | use the sample comfiguration file on the plugin site(annotationtypecvimporter.xml) to configure the plugin. |
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26 | Upload the file into base |
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27 | go to Adminstrate -> Plugin Configuration |
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28 | Click the Import tab, select "Plugin Configuration Importer" |
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29 | click browse to select the uploaded xml file (annotationtypecvimporter.xml), click next and finish |
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30 | |
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31 | Follow further instructions on : plugin website if required |
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32 | |
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33 | - go to Administrate -> Plugins -> Definitions |
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34 | Click New to create and share the Tab2Mage Importer Plugin. Follow further instructions on : plugin website if required. |
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35 | |
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36 | - go to View - > File and upload zip files containing all the raw data files and the tab2mage file for the affymetrix experiment |
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37 | |
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38 | - go to View ->Experiment |
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39 | create a new Affymetrix experiment |
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40 | on experiment view page click on the import tab and select Tab2Mage Importer |
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41 | Run the Tab2Mage Importer, following the instructions on plugin website |
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42 | |
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43 | |
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44 | PRESTO! following the above process should upload the experiment for you. |
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45 | |
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46 | |
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47 | ------------------------------------------------------------------------------------------------------------ |
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48 | |
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