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Dear Amy Sweeny,
I read your great paper ... Please you can help me to fit a model.
I have this variables:
asv : DADA2 output
treat : 3 differents (class1, class2, class3)
time : 3 diff…
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### What happened?
Clicking the "Benchmarked by ASV" Badge leads to a broken URl
https://pandas.pydata.org/speed/xarray/
### What did you expect to happen?
_No response_
### Minimal Compl…
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In some of our benchmarks (mpas_ocean specifically) there is a test of two files, 120km and 480km. Profiling fails when this is the case. Changing the code to only use one file allows profiling to wor…
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We should benchmark the changes made in https://github.com/MDAnalysis/mdanalysis/pull/3753/files/a946156f440e0ec7714854723a201f4d4b941526#r1550099795 .
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Hi Vuthuyduong,
I have followed your pipeline for the classification of some ASVs. My reads are ITS1 extracted, and I’ve used the ITS1 extracted UNITE v10 database that you prepared (thank you!). H…
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In the FAPROTAX DATABASE, the taxa *Proteobacteria*Nitrosomonadaceae* appears in the function aerobic_ammonia_oxidation.
However, using the pipeline written below to obtain the faprotax table, I ha…
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MDAnalysis has been running ASV benchmarks for the last 6 years and published them at https://www.mdanalysis.org/benchmarks/ . Data are held in https://github.com/MDAnalysis/benchmarks . These benchma…
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Hi everyone,
I’ve been using the `EPA-NG` module along with the [SBDI-GTDB database](https://figshare.scilifelab.se/articles/dataset/SBDI_Sativa_curated_16S_GTDB_database/14869077) to perform phyloge…
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When running the Taqx4Fun2 makeFunctionalPredictions() command I receive an error.
Here is the code I am running (I shortened the paths):
>query_otu_seq = './table_sequences_asvNames_filtere…
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### What kind of feature would you like to request?
Additional function parameters / changed functionality / changed defaults?
### Please describe your wishes
It’s basically unmaintained: https://g…