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Hi,
I was wondering is there any technical reasons why taxonomy could not be assigned to taxonomy using this approach, not for abundance estimates, but just for taxonomic assignment?
Thanks,
Fea…
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Hello :)
I wonder if there is any possibility to add another column to the results of `assignTaxonomy`?
For example while working with ITS sequences I want to see not only taxonomy assignments (Ki…
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### Summary
- What does this package do? (explain in 50 words or less):
*R implementation of the [PhyLoTa](http://phylota.net/) pipeline. It identifies orthologous sequences in GenBank using B…
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Hello, I am fairly new to phyloseq and I am trying to make a bar graph with my data at the Class level. I made a bar graph at the Kingdom level by removing all "Unclassified" and "Unknown" data at th…
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I have sequenced the fungal ITS2 region and am attempting to analyse it using dada2. Unfortunately, many of my reads do not overlap, so I would like to use justConcatenate = TRUE when running the merg…
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Hi @cdiener ,
When you were running dada2 on the data, did you notice a high variation in sequence lengths after sequence inference and merging paired reads? I have sequences that vary in length fr…
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Hi all,
I am very new to DADA2/phyloseq, and have some very very basic queries, I apologise in advance!.
I’m familiar with QIIME 1 analysis, however I want to run DADA2 as well.
I have 16s Mis…
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Dear Ben,
I've been running CheckM and RefineM on my metagenomic bins, and after a discussion with Donovan Parks regarding abundance estimation, he recommended your SingleM software. I think this l…
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### Summary
- What does this package do? (explain in 50 words or less):
The global plant phenology data portal (PPO data portal) is an aggregation of plant phenological observations from USA-NPN…
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Hello,
I am trying out RefineM to clean up some bins and have come across the following error when trying to detect taxonomic outliers. I assume that my database formatting is off in some way but h…