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This is biom-format==2.1
```
$ biom convert -i otu.tab -o otu.json --table-type="OTU table" --to-json
/usr/local/lib/python2.7/site-packages/biom/util.py:30: UserWarning: h5py is not available
warn…
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I am new to biome file and try to download the biom here for testing. I have click and save the raw file into my hardisk and tried to open it in R using phyloseq and biom package but it returns :
"E…
arcys updated
8 years ago
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I'm working on an analysis where I'd like to identify the most abundant through least abundant observations on a per-sample basis. Is this something that others would like to see in BIOM? For example:…
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It would be awesome if the CLI could be moved to click, are there any current technical limitations?
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@mdietze Marcos has told me that you are more familiar with the xml file procedure to set parameters for PFTs.
What I would like to do is take three existing PFTs (e,m,l tropical), make an exact copy …
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3.5 is now out. I'm wondering whether there are known incompatibilities with >3.3 or if those versions haven't been tested yet ("unknown unknowns")?
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Using R 3.2.2 in Windows 8.1, I'm trying to import a qiime otu table file, using this code:
biom_otu_tax
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I have a biom file that has sample metadata and OTU taxonomy data. When converting the biom file into a classic table, I loose the sample metadata. Is there a way to keep it i.e. to get a classic tabl…
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Hello!
I followed your examples to the T and thank you so much for the ease of this package. I wanted to know if you came across any of these errors and how I could go about fixing them.
I see th…