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lanl / 4DGB

4D Genome Browser project
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Add 'data upload' workflow steps #84

Open dhrogers opened 2 years ago

dhrogers commented 2 years ago

User shall be able to:

  1. upload HiC maps and associated track data through a web page. This shall then cause a workflow to be started that will generate a structure file for each HiC map. This will then be handed to something that will generate a database and start a browser instance/server instance
camtauxe commented 2 years ago

I have an idea for how the "data-upload -> project generation -> new browser instance" workflow could work (with user accounts / password protection, etc.). I can start prototyping something for this if you like. But the "HiC map -> structure file" process is still unclear to me. Are we using an external service for this? Do we have a library we can use? Or are we implementing the process ourselves?

dhrogers commented 2 years ago

Anna and her team are responsible for the HiC->structure file workflow.

They are doing it in Google Collaboratory (basically jupyter notebooks on the web), but I'm not certain how they are doing it.

I'll reach out to Anna and her team and get the discussion started so we know more about what they are doing.

I have an idea for how the "data-upload -> project generation -> new browser instance" workflow could work (with user accounts / password protection, etc.). I can start prototyping something for this if you like. But the "HiC map -> structure file" process is still unclear to me. Are we using an external service for this? Do we have a library we can use? Or are we implemented the process ourselves?

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