Creating your first microarray case in Franklin is easy and intuitive. This short article demonstrates how this could be done in less than 3 minutes.
Please note: Case analysis capabilities are available to registered users only, so if you don't already have an account in Franklin, simply sign up. Like everything in Franklin, case analysis is (and will stay) free with no limitations.
There are two different options to create CMA cases in Franklin:
Single case upload
To get started, navigate to the MY CASES application, click on New Case, and select Microarray variants as the application.
Fill in the case details, remember, adding all the case information will allow Franklin to provide more accurate analysis results. In particular, we encourage adding all phenotypic information available. For this, you can simply start typing in the Phenotypes field, and Franklin will help you by auto-completing using HPO terminology.
Upload AED, or VCF file - drag and drop or select a file from your folders.
Click on create and wait until the upload and the annotation process are complete. Please have in mind that this could take up to 30 minutes.
Batch upload
To upload microarray samples in bulk, head over to the Assets page, which you can find under the dropdown menu on the top right.
Or click on "New Case" from the MY CASES application.
There, you should choose the Bulk Upload option, where you can select the correct Assay for the analysis. Then, drag and drop or choose files or folders from your local computer or server. Franklin supports all standard ChAS file formats (VCF/AED).
When using the batch upload option, the accession of the case details (including the available phenotypic information) should be performed manually once each case is created. You can do this directly from the Workbench, by clicking the Edit button on the top right.
Automating the process of case accession by uploading a sample sheet or configuring an API integration is possible by contacting Franklin's support team.
Pro tip: If you're a Chromosome Analysis Suite user and are working with version 4.4 and beyond, you can send your files directly from ChAS to Franklin by right-clicking on the sample(s) and choosing "Send File(s) to Franklin".
When your case is ready, it will no longer be grayed out and the status will be changed to Active - click on the case tile to start the analysis!
Check some best practices we recommend in this article.
Still have questions? Reach out to our Support Team, they'll be happy to help!