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Hi, I would like to use DeepMicro for disease prediction.
But i can't figure out how to generate the 'correct' input data for DeepMicro. I saw that the UserDataExample.csv has a lot of digits, wher…
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The driving VA use case for this is to represent the group of individuals in which variant frequency is interrogated to produce 'Population Frequency Annotations'. The most common use case here is to…
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Good afternoon,
I have obtained this output from GenomeScope2.0:
http://qb.cshl.edu/genomescope/genomescope2.0/analysis.php?code=8R88KLKRwQtldaGTCBjx
This is for a diploid plant genome. Genome …
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I use `taxopy` to find the LCA of taxids from a sample.
```python
cd = path.dirname(path.abspath(__file__))
nodes_dmp_file = path.join(cd, "../data/nodes.dmp")
names_dmp_file = path.join(cd, …
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@dr-shorthair, @ashleysommer, @rob-metalinkage, @jyucsiro: *note this changed semantics for pyLDAPI use in LocI*
Due to Issue #17, I’ve recoded pyLDAPI to deliver Containers (`rdf:Bag`), not `reg:R…
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Collection profiles and associated created containers are not associated with OTUs. Currently only label fields are added as a notes field. Can we pull OTUs from the "Taxon Number" field in Filemaker?…
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`extract_genus` needs to speed up.
- One option is preprocess the parquets before saving. (Not ideal, because stable vs current resources are then different)
Relevant SO post: https://stackoverflow…
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**Name**
Sierra Moxon
**Email**
smoxon@lbl.gov
**GitHub Username**
@sierra-moxon
**Details**
Page: /feedback
Browser: Chrome 120.0.0.0
Device: Apple Macintosh
OS: Mac OS 10.15.7
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hello all,
thanks a lot for the wonderful package,
I'm trying to use loadFromMetaphlan to create a TreeSummarizedExperiment with Metaphlan 4 output.
"file_path
Error: 'file' must be a singl…
J5886 updated
1 month ago
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Hi. I'm running MetaCache query with the `-abundaces profile.tsv` and `-abundance-per species` flags. It appears this writes two profiling results to `profile.tsv`: the full taxon profile and a specie…