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I would like to generate a list of V Region AA sequences in FASTA format to use for mass spec analysis, but running mixcr exportClones with -aaFeature set to anything besides CDR3 gives me no output. …
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This follows on from #39, but can probably start writing some of this.
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From David's email, some of which to be implemented:
>I did find a nice summary of alpha/beta diversity metrics that are important to biologists (imported from the 16S realm):
https://www.drive5.c…
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Now that BioJulia is progressing, we should use it to create phylogenetic and genetic diversity measures.
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A serious bug has been identified in the Jaccard distance metric, as well as several other qualitative diversity metrics imported from scikit-bio and SciPy. Unweighted UniFrac is **not** impacted by t…
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Depends/related to #113
This would involve plugin-level, action-level, and potentially even transformer/format-level citations.
Once recorded, q2view or other interfaces could demonstrate what …
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Hi Stephen,
Thank you for your program!
I am trying to use MIDAS to construct a detailed strain phylogeny for a single species, and am running into a bit of trouble in the final steps. I creat…
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A similarity-sensitive diversity metric may be of added value. Phyloseq's data structure allows including a phylogenetic tree within the object, which should be relatively eassy to extract distance in…
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Last of the following three command exists with (I am using qiime2-2017.9):
```
Traceback (most recent call last):
File "/home/sjanssen/miniconda3/envs/qiime2-2017.9/lib/python3.5/site-packages/q…