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**Improvement Description**
Test data for weighted unifrac is ported from `q2-diversity`, and both actual and expected appear to be produced by the same software. Test data should be generated "by ha…
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Dr. Liu
Environmental variables have different measurement units or scales, and environmental variables may have skewed distributions, which may require data transformation such as normalization or l…
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Hi again Chi!
I'm using your script for doing a dbRDA, but when doing it with vegan I do not obtain the same results. Is there any kind of transformation or scalation applied to the data? because I…
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I've written a model that should be able to simultaneously control for and assess alpha diversity, overall beta diversity, and individual differential abundances and prevalences. I'd like to test it o…
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A. Beta diversity – within vs. between weighted UniFrac/Bray-Curtis values
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If you call a script that's making a system call and one of your input/output paths have spaces in them, the script will error as most command strings are formed like this:
``` python
path_with_space…
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This shouldn't be affecting results, just noting here so we can track it. Tagging for 1.9.1 in case it's an easy fix.
``` bash
$ beta_diversity.py -i otu_table.biom -m bray_curtis -o o
/Users/capora…
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It would be nice to be able to perform a post-hoc test in group significance and beta diversity.
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It seems that the sequencing depth was not considered in the .py code. The sequencing depth could affect alpha and beta diversity. Should the sequencing depth be considered?
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**Improvement Description**
E.g., proportion and DESeq Variance Stabilization would be good alternate strategies for weighted distance methods, as shown [here](http://journals.plos.org/ploscompbiol/a…