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Benjamin-Lee / vdsearch

Viroid-like circRNA discovery and analysis suite
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[Request] Conda installable #8

Open jolespin opened 1 year ago

jolespin commented 1 year ago

Are there plans to throw this on to Bioconda or your own conda channel?

Could be helpful for integrating this into existing pipelines. For example, I'm working on github.com/jolespin/veba and it would be useful to incorporate this workflow into the viral binning pipeline. Due to all of the dependencies for other packages, I'm only using packages installed through conda (potentially pip but conda is preferred).

Benjamin-Lee commented 1 year ago

Yes, this is the plan. We’re working on packaging our circular RNA detection suite separately since it will be far easier to distribute this package as a pure Python project (plus it will be way more performant since it’s now multithreaded). In the meantime, I’m happy to run any data you’re willing to share—just shoot me an email. We’ll prioritize getting a package out ASAP. On Feb 2, 2023, at 7:32 PM, Josh L. Espinoza @.***> wrote: Are there plans to throw this on to Bioconda or your own conda channel? Could be helpful for integrating this into existing pipelines. For example, I'm working on github.com/jolespin/veba and it would be useful to incorporate this workflow into the viral binning pipeline. Due to all of the dependencies for other packages, I'm only using packages installed through conda (potentially pip but conda is preferred).

—Reply to this email directly, view it on GitHub, or unsubscribe.You are receiving this because you are subscribed to this thread.Message ID: @.***>

Benjamin-Lee commented 1 year ago

By the way, I've now added a Dockerfile and published the image to Docker Hub, so this should help ease the install pains in the mean time. The updated instructions are on the README.