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Questions - phyloseq

Trying to change colour of one variable in ggplot geom_bar dependent on the string

I have a for loop to run through a tonne of microbiome data (using phyloseq) and generate plots for multiple experiments. ggplot(data_M1, aes(x = Sample, y = Abundance, fill = get(i))) + geom_ba...
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DS14

r

ggplot2

phyloseq

Votes: 0

Answers: 1

Latest Answer

@camille's comment about a minimal reproducible example is germaine. We need know nothing about your facets, guides or call to ggsave to answer your question. First, generate some test data library(t...
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Limey

Phylo tree has no branch lengths using phylosig () R

I am having a hard time understanding why my phylo tree (imported as a phyloseq object from QIIME2) appears to have no branch lengths when used in phylosig(). I am trying to compute the phylogenetic s...
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Geomicro

r

phylogeny

phyloseq

Votes: 0

Answers: 1

Latest Answer

The problem is not the lack of branch lengths in the tree. What the error message is saying is that the tree does not have the tips that correspond to the names of values in the trait variable. glacia...
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nya

Editing tables with R studio

Phylum Abundance Bacteroidetes 12 Firmicutes 4 Proteobacteria 3 Firmicutes 21 Firmicutes 9 Bacteroidetes 15 Proteobacteria 3 Bacteroidetes 8 Verrucomicrobia 2 Bacteroidetes 5...
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Mücahit Kaya

dplyr

tidyverse

data-manipulation

phyloseq

Votes: 0

Answers: 2

Latest Answer

df <- data.frame(Phylum = c("Bacteroidetes","Firmicutes","Proteobacteria","Firmicutes","Firmicutes","Bacteroidetes","Proteobacteria&...
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cgvoller

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