Simple Phylogeny pipeline

Simple Phylogeny specifications

Information


Unique identifier OMICS_17615
Name Simple Phylogeny
Interface Web user interface
Restrictions to use None
Input data A multiple sequence alignment.
Input format Clustal, FASTA, MSF
Output format Clustal, Distance Matrix, NEXUS
Computer skills Basic
Stability Stable
Maintained Yes

Simple Phylogeny IN pipelines

 (3)
2017
PMCID: 5516332
PMID: 28724407
DOI: 10.1186/s12864-017-3942-9

[…] and other works [9]. protein multiple alignment was done with the online tool clustal omega, and the phylogenetic tree was constructed using the neighbor-joining statistical method with the simple phylogeny tool using the default parameters. the tree, originally in the newick format, was visualized with mega 6.0 software [37], and the resulting tree is presented in fig. 3.fig. 3 , […]

2017
PMCID: 5590126
PMID: 28912832
DOI: 10.1186/s13068-017-0898-6

[…] [http://www.ebi.ac.uk/tools/msa/clustalo/]. phylogenetic trees were generated by itol version 3 [http://itol.embl.de/] according to the “one click” phylogeny analysis tool [http://www.phylogeny.fr/simple_phylogeny.cgi]. signal peptide sequences were predicted using the signalp server [http://www.cbs.dtu.dk/services/signalp/]. amino acid sequence logos were performed using the weblogo3 […]

2016
PMCID: 4914512
PMID: 27445992
DOI: 10.3389/fmicb.2016.00884

[…] , http://enve-omics.ce.gatech.edu/ani/ , http://blast.ncbi.nlm.nih.gov/moleblast/moleblast.cgi , http://ggkbase.berkeley.edu/mel/organisms. , http://www.phylogeny.fr/simple_phylogeny.cgi , http://broadinstitute.github.io/picard , http://rast.nmpdr.org/ , the supplementary material for this article can be found online at: […]

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