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- add phylopic sil's - see #3
- facet by taxonomic rank? e.g.,
```r
# facet by rank
x %>% %>% facet_rank(phylum)
# custom name vs. name OR rank vs. rank
x %>% %>% compare_ranks(phylum)
x …
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Hi,
hope all of you are good.
I used Sourmash compute with a collection of bacterial isolates in two experiments (1 with only one type of bacteria) and another one with several types of bacterias)…
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Hi Zachary,
I have built a pipeline with the metacoder tutorials and it was all working fine for a very long time with different data inputs, but recently (2 weeks ago maybe) I am getting an error …
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Hi there! Our lab is really interested in using GraPhlAn to visualize differential abundances of our microbiome dataset. I'm having a hard time parsing the output from corncob into GraPhlAn. Would you…
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Hi Zach!
I'm a user of the dev deseq2 branch but it's not working since the release of the master v3.5 -- I guess--.
When I install the dev branch with
`devtools::install_github("grunwaldlab/metac…
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**Date accepted:** 2022-12-13
Submitting Author Name: Santtu Tikka
Submitting Author Github Handle: @santikka
Other Package Authors Github handles: @helske
Repository: https://github.com/santikka/…
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Hey,
I am realy new to this program..
In my table I already have the relative abundances
```
53 taxa: ab. Bacteria, ac. Proteobacteria, ad. Proteobacteria ... ca. Bradyrhizobium, cb. …
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Hi, in my script I am looping through a bunch of files using primersearch_raw. Some files contain one fasta file others contain multiple fasta files. For some files primersearch_raw return 0 results w…
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Would it be possible to add an option to give the full taxonomic lineage in the output file? For example, if I select species level counts, the name includes KPCOFG as well:
`Bacteria;Bacteroidete…
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Hi all,
Just learning metacoder, hoping to do some beta diversity analysis. All my upstream data cleaning was in qiime, so I started with an OTU table. I'm at the point where I'm trying to rarefy …