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Hi,
I'm analyzing the rare vs abundant taxa in my dataset, and I am using this command:
rare = filter_taxa(phyloseqobject, function(x) mean(x) < 330, TRUE)
The issue with this (if I'm interpreting …
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Installation from github of dada2 version 1.1.4
on Mac with R version 3.3.1
Here are the two messages:
`In file included from RcppExports.cpp:4:
In file included from ./../inst/include/dada2.h:7:
./…
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I've been going through the following tutorial:
http://genoweb.toulouse.inra.fr/~formation/15_FROGS/April2016/R_phyloseq/phyloseq_formation_toulouse_201604.pdf
I can't perform the following (Slide 4…
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[HARVARD FOREST SUMMER RESEARCH PROGRAM IN ECOLOGY EXPECTATIONS FOR STUDENTS](http://harvardforest2.fas.harvard.edu/temp/Student_Expectations.153778.pdf)
The Harvard Forest summer program is an 11 we…
MKLau updated
8 years ago
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Hi @benjjneb,
I'm having lots of fun playing with dada2! I would suggest some additional documentation for the `plotQualityProfile` function. It's not clear what each of the orange/green lines are. …
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Hey everyone!
I'm Aidan, live in Brooklyn, and work on the GitHub education team. I also run [a meetup](http://hackerhours.org) for people learning to code, do a [bit of teaching](https://github.com/…
afeld updated
8 years ago
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Hi all
I have been trying to export graphs generated using shiny-phyloseq, which is a great little program by the way. However no matter which graph I generate, I am getting a **Error: argument to 'w…
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Need to figure out best way to display exact definition of data in a consumer friendly-ish way.
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I was curious if you have any specific reason to only implement RDA taxonomy annotation and/but not blast ? People criticize RDA because of its lack of sensitivity.
Thanks.
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I have been working with dada2 recently and it really seems like a great improvement over the open reference OTU picking approach. I have run into the same question on a couple of datasets and would l…