Question

There are any python alternative to bioconductor?

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4.3 years ago

schlogl ▴ 160

Hi guys,

Happy new year!

There are any possible python alternative to bioconductor genome analysis?

Thanks for you all!

Paulo

python • 5.1k views

ADD COMMENT • link 4.3 years ago by schlogl ▴ 160

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there is biopython, but as I know (never work with it outside my university courses) it does not comprise even 1% of material presented in bioconductor

ADD REPLY • link 4.3 years ago by German.M.Demidov ★ 2.9k

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bioconductor genome analysis

What does that mean? Are you referring to python package equivalents as alternative to R packages?

ADD REPLY • link 4.3 years ago by GenoMax 141k

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Yep! Genomax... thats the idea. But R is awesome..

ADD REPLY • link 4.3 years ago by schlogl ▴ 160

score 3 · Accepted Answer · 2019-12-28

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4.3 years ago

JC 13k

Short answer: No

Long answer: There are many tools/packages already in BioConductor, there are a few similar in Python, but each one has their own advantages/disadvantages.

ADD COMMENT • link 4.3 years ago by JC 13k

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I think it would be hard to beat R. But I think I need to ask... Thank you fellas...

ADD REPLY • link 4.3 years ago by schlogl ▴ 160

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There are some good part in R, but in general, it's better to use code already exists and not rewrite them again. You can use Python in R and R in Python.

ADD REPLY • link 4.3 years ago by JC 13k