iTOL specifications

Information


Unique identifier OMICS_04256
Name iTOL
Alternative name interactive Tree Of Life
Interface Web user interface
Restrictions to use None
Input format Nexus, Newick, phyloXML
Computer skills Basic
Version 2.1
Stability Stable
Maintained Yes

Maintainer


  • person_outline Ivica Letunic <>

iTOL articles

iTOL citations

 (33)
2018
PMCID: 5844301

[…] distances using the program fastme ver. 2.1.5 (lefort et al. 2015) with the command:, fastme–2.1.5–linux64 –d 1 –i $distance_file –o $tree, phylogenetic trees were diagramed using the web interface itol ver. 3.4.3 (http://itol.embl.de/) (letunic and bork 2016)., the authors state that all data necessary for confirming the conclusions presented in the article are represented fully within […]

2018
PMCID: 5897096

[…] were midpoint rooted and branches with local support less than 95 were collapsed using the ape and phangorn r packages (paradis et al., 2004; schliep, 2011). phylogenies were visualized using itol version 3.0 (letunic and bork, 2016)., for the data included in figure 2a, the number of genes for which a bacterial origin was confirmed after inspection of the correspondent phylogenetic tree […]

2017
PMCID: 5872309

[…] domain architectures were obtained by scanning the proteins against pfam 31 with pfam_scan.pl with a e-value threshold of 0.01. phylogenetic trees with domain architectures were visualized with interactive tree of life (itol) (embl, heidelberg, germany) [22]. each protein family was inspected to differentiate between related enzymes. laccases were identified using, as reference, hoegger […]

2017
PMCID: 5745217

[…] using the neighbor-joining method with default parameters besides 1000 bootstrap replications was used to generate the phylogenetic tree (tamura et al. 2011), which was further edited by using the interactive tree of life on line tool (itol, http://itol.embl.de) (letunic and bork 2016)., additional file 1: figure s1. additional file 2: table s1. , ting zou and qiao xiao contributed equally […]

2017
PMCID: 5643300

[…] using fitch with global rearrangements. confidence levels for the bifurcating branches were obtained using seqboot program with 1000 step bootstrapping. phylogenetic trees were visualized by using itol74., all data generated or analyzed during this study are included in this published article and its supplementary information files., , melissa j. caimano, abhishek dey and arvind […]

iTOL institution(s)
EMBL, Heidelberg, Germany

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