Predictive metagenomics profiling. Tax4fun?

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Jeff S Bowman Popular answer

Bea,

I have a little experience with that program but not much. If you're still looking for a functional prediction method you might consider our paprica program: https://github.com/bowmanjeffs/paprica. Happy to help if you want to give it a try.

Cheers,

Jeff

Jeff S Bowman

Jay Siddharth

I would just suggest making a biom file with your 16S amplicon data and using the picrust online server or something like metagenassist.

So you can avoid issues of installation of software and its dependencies.

https://huttenhower.sph.harvard.edu/galaxy

http://www.metagenassist.ca/METAGENassist/faces/Home.jsp

Beatriz Gil Pulido

Hi Jay,

Thanks for your answer. I've worked with the biom output from QIIME to generate my output with Tax4Fun. So the work is done just I'm not familiar in how to work afterwards and I have a couples of questions. At the moment I've decided to work with Tax4Fun and not use another platform.

Anyway, thanks for your links as I'm sure they'll be useful for my studies.

Regards,

Bea.

Hi Jeff,

Thanks for your answer.

I've never hear before about paprica program. So thanks for sharing that information and the link. For the moment I'll be happy to work with Tax4Fun since I already have the output once running it using R. It is just I'm not familiar in how to work with all of that (either with R) so I'll be happy if I could ask you few questions that might help.

Would it be ok if I contact with you by email through research gate?

Feel free to contact me by email.

Ok Jeff,

Thanks. I will send to you an email with few questions along the afternoon.

Kind regards,

Most welcome. Have fun with data.

Lei Zhang

Hi, Bea

I'm learning to use Tax4Fun now, but I have some questions. I'm not sure what the Tax4FunProfile values are, and what I can do with the Tax4Fun output in the downstream analysis. I'll be very happy if you could help me!

Thanks!

Lei

Jinshan Liu

Hi，Bea, do you run the programe well? I did the analysis, but I can not get the output or values. Do you have some experience?

Thanks.

Jinshan

Hi Jinshan,

No, I do not use the program. I went throughout PICRUSt thanks to the help of one of my colleague.

Best of luck.