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[The ordination method section](https://microbiome.github.io/OMA/docs/devel/pages/20_beta_diversity.html#sec-unsupervised-ordination) does only describe available methods, but does not really say the …
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Hi,
is it possible for the end user to utilize the machine learning models (Pseudomonas/Burkholderia) utilized in the original paper of bacLIFE?
Regards,
Zuhairi
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As the title says.. using PCoA, I cannot see an explained variance variable or an explanation of the 'trace' variable.
Thanks.
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One thing that I think could potentially really clarify the the PCoA plots is to have some kernel density estimators. This could not only allow the user to visualize where the most points are cluster…
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We have a pretty complicated PCoA plot to handle and it came up that allowing simple patterns for each sample point would be a great feature. This would also improve publishing quality since sometimes…
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Hi .. This is not an issue but sort of discussion or know-how question if you don't mind.
Any guidance on how to create PCoA while taking into account the genus level of microbiota along with othe…
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Hi, I was comparing the outputs from a PCA (using `rda` ), PCoA (using the combo `vegdist` and `wcmdscale`) and NMDS (using `metaMDS`). Then when using `scores` to extract the species and site scores …
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Hello,
I subset my data (using subset_sample function: `ps.rareD5
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provided more detailed documentation on how to identify and remove mislabeled samples from an OTU table. This should include an illustration of how to create a 3D PCoA plot where samples are colored b…
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**Is your feature request related to a problem? Please describe.**
For the MECONIUM project I created a script called `calculate_centroid.py`. This script takes in a mapping file, and either a beta p…