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ScripTree: scripting phylogenetic graphics
2010
Computer applications in the biosciences : CABIOS
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Scripting phylogenetic graphics would enable the saving of graphical analyses involving numerous and complex tree handling operations and would allow the automation of repetitive tasks. ...
Phylogenetic graphics instructions, related to tree rendering as well as tree annotation, are stored in a text file and processed in a sequential way. ...
CONCLUSION ScripTree is a tool for scripting phylogenetic graphics. It allows the management of multiple trees and usual kinds of annotations. ...
doi:10.1093/bioinformatics/btq086
pmid:20194627
fatcat:c2y57awskfdzpkii5wztmwsa3m
A New Web Server for the Rapid Identifi cation of Microorganisms
2010
Journal of Microbial & Biochemical Technology
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The server also includes online software to automatically display annotated phylogenetic trees. ...
It allows retrieving related sequences and their taxonomies, in order to proceed to phylogenetic analyses. ...
Annotations are provided from a local database and through a pipeline that uses ScripTree (Chevenet et al., 2010) . ScripTree is a tool for scripting phylogenetic graphics. ...
doi:10.4172/1948-5948.1000029
fatcat:4p2ne7hbajgtbcc53lvzjqytga
CompPhy: a web-based collaborative platform for comparing phylogenies
2014
BMC Evolutionary Biology
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Conclusions: CompPhy is the first web platform devoted to the comparison of phylogenetic trees allowing real-time distant collaboration on a phylogenetic/phylogenomic project. ...
The ScripTree interpreter for phylogenetic graphics is in charge of generating tree pictures [7] . It manages tree edition and annotation. ...
ScripTree takes text files as input to produce a tree picture: the tree in Newick format, a script for the graphical rendering and annotations in CSV format. ...
doi:10.1186/s12862-014-0253-5
pmid:25496383
pmcid:PMC4271409
fatcat:ddq7tzg4tvfyzgknvgqfeqirje
Armadillo 1.1: An Original Workflow Platform for Designing and Conducting Phylogenetic Analysis and Simulations
2012
PLoS ONE
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A number of important phylogenetic and general bioinformatics tools have been included in the first software release. ...
In this paper we introduce Armadillo v1.1, a novel workflow platform dedicated to designing and conducting phylogenetic studies, including comprehensive simulations. ...
On the other hand, a graphical Table 2 . ...
doi:10.1371/journal.pone.0029903
pmid:22253821
pmcid:PMC3256230
fatcat:3bn34nd4prbn7fca3vbsty63qe
Candidatus Nitrosocaldus cavascurensis, an Ammonia Oxidizing, Extremely Thermophilic Archaeon with a Highly Mobile Genome
2018
Frontiers in Microbiology
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Phylogenetic 32 analyses based on ribosomal proteins place the organism as a sister group to all known 33 mesophilic AOA. The 1.58 Mb genome of Ca. ...
ScripTree: scripting 813 phylogenetic graphics. ...
The pivotal phylogenetic position of Ca. ...
doi:10.3389/fmicb.2018.00028
pmid:29434576
pmcid:PMC5797428
fatcat:frbtb3wpufbq3h7oaytbaya4yq
Candidatus Nitrosocaldus cavascurensis, an ammonia oxidizing, extremely thermophilic archaeon with a highly mobile genome
[article]
2017
bioRxiv
pre-print
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Phylogenetic analyses based on ribosomal proteins place the organism as a sister group to all known mesophilic AOA. The 1.58 Mb genome of Ca. ...
ScripTree: scripting 813 phylogenetic graphics. ...
The pivotal phylogenetic position of Ca. ...
doi:10.1101/240879
fatcat:4ai6z7dcpnbcnii7v2nbyvbo2a
On building and comparing trees Application to supertrees in phylogenetics
2009
unpublished
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Christen concerning a scripting language for graphical display of phylogenetic trees that the former is currently developing. ...
An application note on ScripTree should be submitted in the following month to the Bioinformatics journal. ...
fatcat:kzulocavzjac5htps7gbmmoyk4