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Hello,
Kind of a weird 'issue' as it's more a 'forum like' topic.
I am completely new to JSDMs and have some questions about some thoughts I had about how to use them.
For instance :
- How i…
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**Short summary:** The runtime and memory consumption of `skbio.diversity.alpha._faith_pd` scale with the number of tips in the supplied phylogenetic tree and not with the number of features in the p…
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Hi!
I am using inStrain in gut mouse microbiome samples. I compared nucleotide diversity and number of SNVs of every MAG and I observed that in most of the cases a decrease of π, more SNVs detecte…
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It would be helpful to have a single page with an overview of all sorts of statistics (generated dynamically). React to this issue, by proposing the items that you would like to see on such a webpage.…
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I'm looking over the revised manuscript. The new tree figure is a great improvement and is much easier to follow, particularly alongside the new description of the Algorithm and Concepts in the docume…
ms609 updated
1 month ago
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Hello
I am teaching myself how to run panX using TestSet. Here is the command I run exactly following the instructions.
./panX.py -fn data/TestSet/ -sl TestSet -t 32 > TestSet.log 2> TestSet.err
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We have a usecase where we have a tree structure that relates samples together, and it would be nice to use this within an Empire plot. The general usecase with Empire plots is a tree with tips that c…
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**Discussion topic:** The iEvoBio organizers have noted a rather dramatic gender bias in attendees at our conference over the last few years, especially in regards to participants in the Software Baza…
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Simple premise: use merge_samples to do exactly that but on different "merging" functions. Specifically: mean (the default), sd, and sum. In R terms:
md1 = merge_samples(OTU,"descriptor",fun=mean)
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Briefly comment on this issue why you are interested in this mini-project.