which language to use for such a bioinformatics web services infrastructure?

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9.5 years ago

lait ▴ 180

This is the scenario:

I have multiple command-line bioinformatics applications written in different languages such as java, Python, Ruby, C, perl ... etc. These applications should be integrated in an online web services infrastructure.
The results from running those tools should be visualized to the user in a user friendly interface.
NoSQL should be used
This whole infrastructure should handle NGS Data upload/download.

What is the best programming language/ framework to use?

web-services java • 3.0k views

ADD COMMENT • link updated 20 months ago by Ram 44k • written 9.5 years ago by lait ▴ 180

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have you tried galaxy?

ADD REPLY • link 9.5 years ago by Giovanni M Dall'Olio 28k

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Yes, but we are trying to make something that is very personalized to our needs.

ADD REPLY • link 9.5 years ago by lait ▴ 180

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So take Galaxy and personalize it to your needs. That can be done on a time-scale of days, rather than the months involved in your original proposal.

ADD REPLY • link 9.5 years ago by Devon Ryan 104k

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As long as I can do the mentioned four points, this would be super perfect! I will check it now. Thanks a lot for the info.

ADD REPLY • link 9.5 years ago by lait ▴ 180

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Do you really want to reinvent the wheel? As Giovanni said, Galaxy already does all of this (heck, you can even run it in a Docker container so that setup is trivial).