Many Affy files can be downloaded or viewed directly from SBEAMS

Access the Download Page To download or view Affy files from a particular project go to the ProjectHome page. Select the project from the drop down located at the top of the page. Click the tab "Data Download" near the top of the page To download files: Select the arrays to retrieve information from. The default is to download all the CEL files from a project The check boxes located under the Affy Tab will select or de-select all the files with that particular extension Once all the files are selected click the button "Get_affy_array_files" Select a location to save the zip file containing all the information selected for downloading Open Link ProjectHome Page

File Types Here is a brief description of all the file types available for viewing or downloading from SBEAMS

CHP CEL XML RPT R_CHP JPEG EGRAM_PF.jpg EGRAM_T.jpg EGRAM_F.jpg

CHP. Binary Affymetrix file. CHP files contain probe set analysis results generated from Affymetrix software. CEL. Binary Affymetrix file. The CEL file stores the results of the intensity calculations on the pixel values of the DAT file XML. MAGE XML Affymetrix file. Contains information from Affymetrix GCOS Software collected during sample preparation, hybridization, washing and scanning. RPT. Text report. Contains information about the CHP file, used for basic quality control R_CHP. Text File. Contains Probe set intensity values, calculated by using R/Bioconductor affy mas5.0 algorithms JPEG. Jpeg image of the Affy Chip generated by R using the image method within the affy library EGRAM_PF.jpg. Electrophoregram image of the Pre-fragmented cRNA EGRAM_T.jpg. Electrophoregram image of the total RNA EGRAM_F.jpg. Electrophoregram image of the fragmented cRNA

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