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Topics are listed from 0 in the top_terms_by_topic, but are listed from 1 in the biplots.
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a few of the (older?) resources have links that don't work. Need to fix
e.g. /resource/an-easy-introduction-to-biplots-for-multi-environment-trials
url:
"https://firebasestorage.googleapis.com/v0/b/s…
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Hi Everyone,
Looking through the documentation and functions for ordinate() and plot_ordination() and I've noticed that there is no option to designate what "scaling" of scores is returned by thos…
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@gavinsimpson is working to implement **ggplot2** plotting for **vegan** objects in his **ggvegan** package. This is a welcome addition, and really best kept in its separate package. However, I've bee…
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Filter a feature table to match a list of feature names. Some scenarios for filtering based on:
1) file containing list of names on separate lines, e.g., your 100 favorite taxa
2) string containing co…
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Hi
i try https://github.com/biocore/emperor/blob/new-api/examples/keyboard.ipynb examples but
>import pandas as pd, numpy as np
>from emperor import Emperor, nbinstall
---
ImportError …
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Hello,
I am a doctoral student working on a microbiomes project and did an principal coordinates analysis in Phyloseq. While I recognize that PCA and PCoA are not exactly the same, I was wondering if…
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There are actually three problems going on
1. The environmental labels are being dropped. [Here](https://github.com/biocore/scikit-bio/blob/master/skbio/stats/ordination/_canonical_correspondence_ana…
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Hi,
we have a two seperate cluster in PCoA 3D plot and it seems like none of the variables(such as age, food habit, etc.. when used alone to visualize) couldnt explain the clear cluster and it might …
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Composition Data analysis is an alternative technique to analyzing compositional data (aka data involving percentages and proportions).
Most of the OTU data that we are dealing with are inherently co…