A new version of phylogeny.fr is available: https://www.phylogeny.fr/!
| "A la Carte" Mode |
Alignment
MUSCLE 
Curation
Gblocks
Phylogeny
PhyML
Tree Rendering
TreeDyn |
Help  |
e-mail resultsClick here to open a popup window allowing you to get the results by e-mail once the computation is over.
Process Info:
Number of taxa: n/a
Computation:
Overall time: 0 seconds
Number of taxa: n/a
Computation:
Overall time: 0 seconds
 |
|
|
Alignment
MUSCLE 
Settings: Run mode: full processing mode |
|
|
|
|
Curation
Gblocks
Settings: Min. seq. for flank pos.: 85% Max. contig. nonconserved pos.: 8 Min. block length: 10 Gaps in final blocks: no |
|
|
|
|
Phylogeny
PhyML + aLRT
Settings: Model: Default Statistical test: alrt Number of categories: 4 Gamma: estimated Invariable sites: estimated Remove gaps: enabled |
|
|
|
|
Tree Rendering
TreeDyn
Settings: Conformation: rectangular Legend: displayed Branch annotation: bootstrap Font: Times 8 normal |
Please cite:
- Dereeper A., Audic S., Claverie J.M., Blanc G. BLAST-EXPLORER helps you building datasets for phylogenetic analysis. BMC Evol Biol. 2010 Jan 12;10:8. (PubMed)
- Dereeper A.*, Guignon V.*, Blanc G., Audic S., Buffet S., Chevenet F., Dufayard J.F., Guindon S., Lefort V., Lescot M., Claverie J.M., Gascuel O. Phylogeny.fr: robust phylogenetic analysis for the non-specialist. Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W465-9. Epub 2008 Apr 19. (PubMed) *: joint first authors
- Edgar RC. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res. 2004, Mar 19;32(5):1792-7. (PubMed)
- Castresana J. Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. Mol Biol Evol. 2000, Apr;17(4):540-52. (PubMed)
- Guindon S., Gascuel O. A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol. 2003, Oct;52(5):696-704. (PubMed)
- Anisimova M., Gascuel O. Approximate likelihood ratio test for branchs: A fast, accurate and powerful alternative. Syst Biol. 2006, Aug;55(4):539-52. (PubMed)
- Chevenet F., Brun C., Banuls AL., Jacq B., Chisten R. TreeDyn: towards dynamic graphics and annotations for analyses of trees. BMC Bioinformatics. 2006, Oct 10;7:439. (PubMed)
