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The experiment data used in this tutorial was not generated de novo; it came from an existing experiment whose data is publicly available on the official NCI instance of caArray at https://array.nci.nih.gov/caarray/home.action (note Note that you may can download this data without registering for an account on the site.) . The experiment, entitled "TCGA Ovarian: Comparative Genome Hybridization Analysis Using the Agilent Human Genome CGH 244A Platform", was conducted at Harvard Medical School in Boston, MA. It can be accessed via the URL https://array.nci.nih.gov/caarray/project/EXP-498 or by searching for the experiment ID 'EXP-498' on the NCI caArray instance. The array design used was TCGA-Agilent_HG-CGH-244A; the array design files can be downloaded from the experiment in ADF format, as can all the experiment data, including the IDF and SDRF metadata files, the Agilent TXT raw array data files, and the TSV derived array data files.
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When selecting a subset of your TXT and TSV files in your file manager, make sure the combined size of the selected files is below 5 GB, as anything larger may compress to greater than the 2 GB upload limit caArray imposes for a single ZIP archive.
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Even though caArray allows archives as large as 2 GB to be uploaded, in this tutorial we will keep the size of archives to approximately 1 GB each to facilitate rapid uploads on slow network connections. |
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You can now move the file selection to the 'batch1' subfolder we created earlier, as shown below:
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