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http://biom-format.org/
this upon request
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Hi,
Any chance of producing the results, i.e. abundance and taxonomy assignment, in BIOM format?
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I'm trying to use export2graphlan with biom-format support which is turning out to be a bit tricky. On one hand, the biocontainer `quay.io/biocontainers/export2graphlan:0.22--py_0` is a Python 2.7 ima…
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Will there be support for the [biom](https://biom-format.org/) format eventually?
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Hi there, I`m using woltka classify on metagenomic short reads. I got the output as RPK which gave me the copy number of each gene in each sample. Although, I`d like to normalize the sequencing depth …
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I have used biom file (hdf5) created by qiime pipeline as input. But BugBase is throwing error.
Then I created biom file in json format using command
**biom convert -i input.biom -o output.biom --t…
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Dear all,
In the past importing an HDF5 biom file would give a warning ("input string 1"...). This was not the case with a later phyloseq version (e.g. 1.42.0). However, now these warnings appear a…
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Hi there!
i'm installing scikit-bio with poetry:
`poetry add scikit-bio`
no error on installing.
but when i trying to run anywhere, as example:
```
import skbio
print(skbio.__version_…
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This is puzzling. The `.write`, which subsequently opens a `h5py.File` for write is erroring on read. The same table can be successfully written with `biom.util.biom_open`, which suggests there may be…
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As I understand it, this tool allows the ability to map CSV and creates BIOM.
Perhaps we should support the ability to create a dataset from a BIOM format? Someone may have used tools like Phyloseq…