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merenlab / anvio

An analysis and visualization platform for 'omics data
http://merenlab.org/software/anvio
GNU General Public License v3.0
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relative abundance calculations #183

Closed jvineis closed 7 years ago

jvineis commented 9 years ago

The summary produces two "relative_abundance.txt" tables. It would be great if the relative_abundance from the bins_across_samples calculated the relative abundance of a bin within each sample, instead of across all samples. For example, in the "bins_percent_recruitment" , the calculation is made in this way with a "splits_not_binned". I find this to me much more useful.

For example, I have a bin "Group_1". In the "bin_by_bin" directory, the value of this bin in a sample is reported as 0.99, indicating that this bin is 99% relative abundance of this sample, but this is not correct.

meren commented 9 years ago

This is important. I will work on this soon. Sorry for the delay.

jvineis commented 9 years ago

You, Ok. I'm settling for mean coverage for now. Thanks,

-Me

----- Original Message ----- From: "A. Murat Eren" notifications@github.com To: "meren/anvio" anvio@noreply.github.com Cc: "jvineis" jvineis@mbl.edu Sent: Tuesday, August 18, 2015 1:48:50 PM Subject: Re: [anvio] relative abundance calculations (#183)

This is important. I will work on this soon. Sorry for the delay.

Reply to this email directly or view it on GitHub: https://github.com/meren/anvio/issues/183#issuecomment-132293927