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I noticed that it is a little tricky for users to calculate individual-based rarefaction curves at the site level. By that, I mean the basic functionality of the vegan function `rarefy()`, where you i…
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Hello-
I just wanted to make a note of two slight bugs I found while doing rarefaction analysis:
1. The script make_file_for_subsampling_from_collapsed.py doesn't work when the --include_single_…
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There was a [request](https://groups.google.com/forum/#!topic/qiime-forum/CsQDqf7a7y0) for a seed on single rarefaction to make sure that rarefaction was repeatable.
This would be easy, and I envisio…
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Hia, awesome package.
One quirk: you've only defined 7 colours for `plot_rarefaction` (see: [line 1426](https://github.com/MoBiodiv/mobr/blob/d60431818de92d98fab834e792df703e0812d3c5/R/mobr.R#L1426…
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Greets Devs,
Thanks as ever for the tk. If my samples vary around a median depth of 50,000, and I rarefy along seq(1,000, 50,000, 10,000), RTK drops, **at all rarefaction depths**, all samples that…
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Even download all the results, the rarefaction curve cannot show in browser(any browser)
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**Bug Description**
Something is up with the dataframe index shuffling. I suspect there was a metadata column named "depth", but a cursory look at the code didn't really explain why that would matter…
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Like the rarefaction on taxonomy a rarefaction on clusters must be added in Cluster_stat.
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Hello,
I am running alph_rarefraction.py for one of my sample. But i am getting an error. The Matrices generations running successfully. But after that, alpha diveristy plots are not creating. it gi…
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Hi,
I have made some rarefaction curves for my sequence reads but I have one sample with a huge number of reads that is making it hard to read. How can I cut of the x axis at a lower number of rea…