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Showing top results for tag: ggtree • reset
1
vote
3
replies
533
views
How to connect the tips of several phylogenetic trees with ggtree?
R tanglegram phylogenetic tree ggtree
5 weeks ago by Luca Arbore ▴ 10
4
votes
2
replies
503
views
GGTree flips my trees
R ggtree phylogenetics
5 months ago by M. ▴ 40
0
votes
1
reply
775
views
How do I annotate a ggtree object with bootstrap values?
ggtree phylogenetic-tree R bootstrap
updated 10 months ago by ▴ 70 • written 10 months ago by • 0
0
votes
0
replies
397
views
Adding shapes from plotly R library to the phylogenetic tree tips generated by ggtree
R phylogenetic-tree ggtree plotly
updated 11 months ago by 44k • written 11 months ago by ▴ 110
2
votes
4
replies
905
views
Problem with Newick format - ggtree in R
R ggtree makeNewick taxonomizr
12 months ago by Toupaie ▴ 10
1
vote
1
reply
753
views
How to get a Newick file that contains the internal node number
ggtree phylogeny tree
updated 12 months ago by ★ 2.8k • written 12 months ago by ▴ 10
0
votes
1
reply
766
views
MSA using ggtree msaplot
R ggtree
updated 14 months ago by ★ 1.4k • written 14 months ago by ▴ 60
3
votes
6
replies
1.8k
views
GGtree flips my tree
ggtree phylogenetics R
updated 5 months ago by 44k • written 18 months ago by ▴ 40
1
vote
2
replies
936
views
Is there a R equivalent of ete3 reconcile?
ete3 bioconductor r ggtree python
2.1 years ago by Alice de Sampaio Kalkuhl • 0
2
votes
2
replies
1.1k
views
FigTree and ggtree
phylogenetic ggtree tree figtree
2.1 years ago by LaFra ▴ 10
0
votes
3
replies
846
views
How to draw evolutionary tree with tpm data
R ggtree evolutionary-tree tpm
updated 2.3 years ago by 149k • written 2.3 years ago by ▴ 10
0
votes
0
replies
433
views
How to adjust the transparency of edges or nodes of a tree produced by a BEAST phylogeographic analysis using ggtree
ggtree tree phylogeographic analysis
2.4 years ago by Qiao • 0
0
votes
0
replies
402
views
Node annotation in GGTree
dataviz R ggtree
2.5 years ago by Alexandra • 0
0
votes
0
replies
792
views
How to attach numbers next to nodes and tips in a tree illustration produced by ggtree? The numbers are imported from an external tsv file.
ggtree
2.5 years ago by Rijan ▴ 30
0
votes
4
replies
1.6k
views
ggtree and issues with NA
ggtree gheatmap
2.8 years ago by pdhrati02 ▴ 30
0
votes
0
replies
624
views
ggtree collapsed clade+images
ggtree plotting R phylogenetics
3.0 years ago by Gabriel R. ★ 2.9k
0
votes
1
reply
1.8k
views
R: ggtree how to show numbers for each node?
ape ggtree R phylogenetics
updated 3.1 years ago by 21k • written 3.1 years ago by • 0
2
votes
2
replies
3.9k
views
how to modify some tiplabs in ggtree?
ggtree tree tiplab bold geom_tiplab
updated 3.3 years ago by ▴ 30 • written 4.0 years ago by ▴ 50
0
votes
0
replies
700
views
Problem aligning ggtree circular tree labels to right angles
fan circular ggtree
3.3 years ago by blur ▴ 280
0
votes
0
replies
563
views
Long vertical colnames in gheatmap are cropped
ggtree gheatmap
3.5 years ago by carmenespinosagongora • 0
0
votes
0
replies
620
views
hjust in geom_cladelab not working properly
geom_cladelab R ggtree
3.5 years ago by Søren • 0
3
votes
3
replies
5.3k
views
How to plot phylogenetic tree using R packages
ape phylogenetic ggtree
3.6 years ago by Kumar ▴ 170
0
votes
3
replies
2.2k
views
What is the error of this Nexus file? I cannot open it in Figtree
figtree ggtree R phylogenetics
3.9 years ago by fhsantanna ▴ 620
0
votes
0
replies
760
views
Color nexus tree automatically using associated data
nexus ape ggtree R python
3.9 years ago by fhsantanna ▴ 620
1
vote
1
reply
1.7k
views
Colour tip labels in a tree based on wildcard/expression using ggtree
ggtree colour R phylogeny dendrogram
updated 3.9 years ago by 44k • written 3.9 years ago by ▴ 30
2
votes
3
replies
10k
views
How do I add circles to the tips of a phylogenetic tree that have white fill and a black border in ggtree?
ggtree visualization phylogenetic tree
updated 4.2 years ago by ★ 2.6k • written 4.2 years ago by • 0
1
vote
3
replies
3.9k
views
plotting trees in R: node labels from nexus tree files
RevBayes nexus ape R ggtree
updated 4.2 years ago by ★ 2.6k • written 4.3 years ago by ▴ 30
5
votes
6
replies
2.0k
views
How can I use 'geom_taxalink()' with the circular layout in the 'ggtree' package in R?
R rstats ggtree ggplot2 phylogeny
4.6 years ago by sd.gamboa.t ▴ 50
3
votes
3
replies
5.7k
views
How to rearrange legends position in phylogenetic tree with multiple associated matrix made by ggtree?
ggtree cowplot get_legend plot_grid
updated 4.8 years ago by 89k • written 4.8 years ago by ▴ 30
0
votes
0
replies
1.4k
views
How to generate genotype data for gheatmap function in ggtree package
ggtree genome SNP alignment R
4.8 years ago by shadowstep • 0
2
votes
4
replies
2.1k
views
Error while reading mlc file from CODEML into ggtree/treeio in R
ggtree treeio software error R phylogenetics
updated 4.9 years ago by 12k • written 4.9 years ago by • 0
12
votes
5
replies
5.9k
views
Add metadata based on tree structure
R ggtree
5.3 years ago by Jack ▴ 50
0
votes
2
replies
1.2k
views
not clipping (like xpd=TRUE)
ggtree xpd clip
updated 5.5 years ago by 20 • written 5.7 years ago by • 0
1
vote
1
reply
5.0k
views
How do I annotate a tree with boostrap scores and color code clades in ggtree?
R bootstrap ggtree phylogenetics
updated 5.5 years ago by ★ 2.6k • written 5.6 years ago by • 0
1
vote
1
reply
1.2k
views
tree and heatmap
ggtree
updated 5.7 years ago by 27k • written 5.7 years ago by • 0
0
votes
2
replies
3.2k
views
R color tree ggtree
ggtree
updated 5.8 years ago by ▴ 30 • written 5.8 years ago by • 0
1
vote
1
reply
3.6k
views
R tidytree ggtree error
ggtree
updated 6.1 years ago by 44k • written 6.1 years ago by • 0
2
votes
3
replies
1.7k
views
What does it mean, "isTip" not found, the following command I have used few days ago and it was working but now it shows error.
R ggtree
updated 6.4 years ago by 35k • written 6.4 years ago by • 0
10
votes
19
replies
23k
views
How to convert fasta file format to phylip file format
phylip fasta ggtree Phylogenetic tree R
updated 6.4 years ago by ★ 2.6k • written 6.5 years ago by ★ 1.9k
2
votes
8
replies
4.6k
views
While using ggtree in rstudio, it shows error in some commands
ggtree
updated 6.5 years ago by 44k • written 6.5 years ago by • 0
23
votes
10
replies
12k
views
Tool: ggtree: phylogenetic tree visualization and annotation
ggtree phylogeny visualization
updated 20 months ago by 44k • written 8.6 years ago by ★ 2.6k
12
votes
8
replies
14k
views
Difference between ape::root, ggtree::reroot and phytools::reroot in R
R ggtree phytools ape phylogenetics
6.5 years ago by Michael ▴ 20
5
votes
3
replies
6.3k
views
How does ggtree interprets branch support value (e.g bootstrap value) given as node label?
ggtree phylogenetic newick R
3.9 years ago by Chirag Parsania ★ 2.0k
1
vote
2
replies
2.7k
views
Is it possible to plot a radiation tree with ggtree? how?
ggtree phylogenetic tree radiation
updated 7.8 years ago by ★ 3.0k • written 7.8 years ago by • 0
0
votes
1
reply
2.9k
views
How to add column name in facet_plot of ggtree
ggtree ggplot2 heatmap R
updated 7.9 years ago by 149k • written 7.9 years ago by ▴ 20
1
vote
2
replies
2.9k
views
defining consistent plot areas in ggtree
ggtree R
7.9 years ago by Joe 22k
7
votes
2
replies
12k
views
Help with ggtree tip labeling in R
Phylogenetics R ggtree ggplot2
updated 8.1 years ago by ★ 3.0k • written 8.1 years ago by ▴ 80
3
votes
4
replies
2.1k
views
ggtree "open_tree" not found in linux version
ggtree
updated 8.1 years ago by ★ 2.6k • written 8.1 years ago by • 0
1
vote
1
reply
3.2k
views
Rotating/flipping multiple clades in ggtree
ggtree R
updated 8.4 years ago by 20 • written 8.4 years ago by ▴ 10
49 results • Page 1 of 1
Recent Votes
Comment: Differential Expression and absolute expression
Is there a tool or method for phasing a VCF based on an already phased BAM?
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Answer: Differential Expression and absolute expression
Comment: circos ignoring the ticks and plots
Answer: Split genotypes in VCF file
C: Plotting numbers of features in EBImage in R
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Recent Replies
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Hi @genomax , thank you very much for your help! I go through that page but still a little confused. 10x scMultiomics data would store scAT…
Comment: multiBamSummary by JC 13k
check https://broadinstitute.github.io/picard/explain-flags.html to choose a proper flag
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Yes, `--samFlagExclude 16` will exclude reads in the reverse strand, you need `--samFlagInclude 16` (primary hits, reverse strand) or some …
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Looks good to me.
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i used the following command. Kindly let me know if i missed something or if it is now correct ``` bbsplit.sh ref=human_GRCh38.p14_genomic…
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I'm not all that familiar with your field of research, but it would seem counterproductive to try and assemble reads of a microbial communi…
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unfortunatly there is no chromosoem level reference genome available. But there are some genome assemblies available at scaffold or contig …
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