Tag: ggtree

R: ggtree gradient highlight issue

I try to fill two clades with gradient color: set.seed(123) tree <- rtree(31) df <- data.frame(node=c(47, 36), type=c(“A”, “B”)) ggtree(tree) + geom_text2(aes(subset=!isTip, label=node), hjust=-.3) + geom_hilight(data = df, aes(node = node, fill = type), type = “gradient”, graident.direction = ‘rt’, alpha=.6) and get an error instead: Error in fix.by(by.x, x)…

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Description, Programming Languages, Similar Projects of Ggtree

🎄Visualization and annotation of phylogenetic trees 206 Projects Similar to Ggtree Tidytuesday 📊 My contributions to the #TidyTuesday challenge Tracklytics ✔️ Annotation based tracking handler with aspect oriented programming Mirador An open-source, web-based ‘multi-up’ viewer that supports zoom-pan-rotate functionality, ability to display/compare simple images, and images with annotations. S Mall…

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Questions tagged ggtree – DevDreamz

Python Javascript Linux FAQ LoginSignup PUBLIC All Questions Tags Snippets Jobs ggplot2rdplyrgeom-textggtree ggtreeggtextggplot2r ggplot2rdata-visualizationggtreeggridges PreviousNext Recent Posts show same id one time but in column count how many times php Assign bundle or argument to ImageView in Android ValueRequiredException during RSS feed parsing in Retrofit Yii2 redirecting isn’t working. Why?…

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r – Displaying BIC and AICs from MSA nucleotide multisequence fasta file

I am trying to replicate MEGA (models/find best DNA protein models) using R. After reading R AICs and BIC documentation I can’t understand how I can implement it. How can I implement AICs and BICs without having to especify the number of sequences in the fasta file (in case that…

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Re: [R] ggtree node labels

Hi If you asked google ggtree node label you will get many hits which tell you how to label nodes E.g. bioc.ism.ac.jp/packages/3.3/bioc/vignettes/ggtree/inst/doc/treeAnnot ation.html And you will get it much more quickly than by asking here. Cheers Petr > —–Original Message—– > From: R-help <r-help-boun…@r-project.org> On Behalf Of April Ettington >…

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Plot igraph tree objects with ggtree

This is a good idea. ggtree is designed for phylogenetic analysis. Some of the functionalities may not be applied to other objects like igraph directly. To make the support more smoothly is to convert the igraph object as a phylo object. So that after conversion, ggtree can be used to…

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R ggtree: How to label single tree tip with ggtree similar to labeling nodes with geom_cladelabel

I’m having trouble with labeling single tips in my tree with ggtree. I’m trying to highlight and label nodes from a tree with geom_hilight and geom_cladelabel. This seems to work fine with nodes that have more than 1 tree tip, but when I try to label a single tip, I…

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hjust in geom_cladelab not working properly

hjust in geom_cladelab not working properly 0 I have an issue with hjust of clade lab when using geom_cladelab. The justification does not change when specifying the labels to align with the outer circle and having angle = “auto” . I have added an reprex of the issue. The problem…

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