Galaxy | Tool Preview

Rooting (version 2.0.0)
Output name for files

Authors Jean-François Dufayard, CIRAD, South Green platform

Please cite "SNiPlay3: a web-based application for exploration and large scale analyses of genomic variations", Dereeper A. et al., Nucl. Acids Res. (1 july 2015) 43 (W1).

Galaxy integration Provided by Southgreen & Andres Gwendoline (Institut Français de Bioinformatique) & Marcon Valentin (IFB & INRA)

Support For any questions about Galaxy integration, please send an e-mail to alexis.dereeper@ird.fr

Rooting

Description

Compute a midpoint newick rooted tree.

Dependencies

Bioperl
perl-bioperl 1.6.924, Conda version

Input file

Newick file
Input tree file

Parameters

Output name
Output base name for the ouput files

Output files

Output_name
Resulting tree rooted in newick format
Output_name.log
Log file

Dependencies

Rooting
CIRAD tool. Contact jean-francois.dufayard@cirad.fr

Working example

Input file

Newick file

(((((((((((((((((((((((((GOGOLEMPUK:0.001198,GOGOLEMPAK:0.002128):0.030378,TREMBESE:0.013258):0.055246,(((JIMBRUKJOL:0.045219,KETANKONIR:0.035298):0.006267, ...

Parameter

Output name -> out tree

Output file

out tree

(ref:0.9384270000000001,(((((((((((((((((((((((((((((((((((IRAT257:0.044246,IRAT112:0.023421):0.009006,ARAGUAIA:0.093061):0.004662...