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Supervised learning verbose output is underwhelming (it prints a single string indicating the biom table has been converted). When you dig in to the R code it should be printing a huge amount of infor…
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I ran this:
`micromamba create -n picrust2 -c bioconda -c conda-forge picrust2=2.5.1`
I had this:
```
___
__ ______ ___ ____ _____…
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**Improvement Description**
A forum user [suggested](https://forum.qiime2.org/t/seeding-the-rarefaction-algorithm/76) that we add support for seeding rarefaction, which is an interesting idea for sup…
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Hello,
I am very new to using phinch. I downloaded phinch v2.0 on Mac OS and the demo HDF5-metadata for trial. I wanted to change the visualization type from barograph to bubble chart or attribute …
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I have installed the most recent versions of both qiime and phyloseq. I'm importing my .biom and mapping files without issue, however, during merge, I'm getting a sample name mismatch error. Upon re…
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I would like to add random bits of metadata to the entire table object, i.e., individual key-value pairs that are valid for the entire table, rather than per observation or sample. Is that somehow pos…
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The types of biom attributes are checked in the setter functions. TypeErrors are thrown if there is a mismatch. As the constructor uses the setters types are also checked in the constructor. But there…
iimog updated
8 years ago
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Include:
- [x] installation steps (will need a `requirements.txt` file)
- [ ] example of computing all L2 pairwise UniFrac distances
- [ ] example of computing means of a couple groups of samples…
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- ~~No feature/sample/feature metadata/sample metadata ID is used twice~~
- Same amount of ranks per feature
- might be easiest to just ensure each feature *has* a ranking.
- ~~Looks like skbio…
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Thanks to #3, there are excellent examples of using the `biom` API. There are also excellent examples in the manpage, but not on the website!
For example, the command `biom normalize-table` is well…