Tool stats & trends
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|Alternative name||Fig Tree|
|Interface||Command line interface, Graphical user interface|
|Restrictions to use||None|
|Input format||Nexus, Newick|
|Operating system||Unix/Linux, Mac OS, Windows|
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- person_outline Andrew Rambaut
Predictable Phenotypes of Antibiotic Resistance Mutations
[…] GT and AT=CG]) with unequal base frequencies, using empirical base frequencies and the FreeRate model of heterogeneity across sites, with three categories). The phylogenetic tree was visualized using FigTree 1.4.3 (http://tree.bio.ed.ac.uk/software/figtree) and Adobe Illustrator. […]
Analysis of the canid Y chromosome phylogeny using short read sequencing data reveals the presence of distinct haplogroups among Neolithic European dogs
[…] e merged two independent BEAST runs performed for 10,000,000 iterations with sampling every 1000 iterations. Convergence of MCMC chains was assessed with Tracer and analysis of consensus plotted with FigTree yielded the same tree topology as found with RAxML .We assigned SNVs in our call set to branches within this phylogeny using the ETE toolkit in python . For a given SNV, we identify all le […]
Architrypethelium murisporum (Ascomycota, Trypetheliaceae), a remarkable new lichen species from Thailand challenging ascospore septation as an indicator of phylogenetic relationships
[…] 10 million generations. Every 100th tree was saved into a file and aborting the analysis was set at the mean standard deviation < 0·01. Tree topology of both ML and BI analyses was illustrated using FigTree v.1.4.2 (http://tree.bio.ed.ac.uk/software/figtree/). […]
Global evolution and phylogeography of Brucella melitensis strains
[…] he TreeAnnotator component from the BEAST 2.3.0 package to obtain a consensus tree, the burn-in parameter for each chain was defined as 20%, the resulting phylogenetic tree file was visualized in the Figtree program . […]
Conservation systematics of the shield backed trapdoor spiders of the nigrum group (Mygalomorphae, Idiopidae, Idiosoma): integrative taxonomy reveals a diverse and threatened fauna from south western Australia
[…] erations, with the first 10% of sampled trees discarded as ‘burnin’ ([burnin = 4000]). Summary statistics of estimated parameters, including ESS values, were assessed using Tracer Version 1.6 (), and FigTree Version 1.4.2 (http://tree.bio.ed.ac.uk/software/figtree/ [accessed March 2018]) was used to visualise the 50% majority-rule consensus tree (Fig. ). Conservation assessments. The conservation […]
Detection of Chlamydiaceae and Chlamydia like organisms on the ocular surface of children and adults from a trachoma endemic region
[…] The partial 16S rRNA gene sequences obtained in this study were added subsequently to the Bayesian tree using the Quick-Add Parsimony option in ARB. The phylogenetic tree was visualized with iTOL and FigTree, (Fig. ).Second, all obtained consensus sequences as well as the 16S rRNA gene sequences of C. trachomatis A/Har-13T (A_E17344.1), C. caviae strain: Gp/Ic (=ATCC VR813) (D85708.1), N. hartmann […]
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(i) Change the clade names, (ii) Modify the line colors and thickness, (iii) Change tree style, (iv) Show the bootstrap, posterior probability values, and node ages.
In addition, you cannot summarized and annotated trees produced by BEAST, for this you should use TreeAnnotator and LogCombiner. The software it is not exclusive for BEAST users, you can use it to visualize trees from: MrBayes, PhyML, RaxML and others softwares.