fasta_to_phylip
fasta_to_phylip converts sequence alignments from FASTA to PHYLIP to prepare input for phylogenetic software.
Key Features:
- Format Conversion: Converts sequence alignment files from FASTA to PHYLIP for compatibility with phylogenetic analysis tools.
- Galaxy Integration: Integrates into the Galaxy platform and the Galaxy@Pasteur instance to operate within Galaxy workflows.
- Execution Management: Supports execution via the Galaxy API and the Bioblend library to manage jobs on the Institut Pasteur cluster.
Scientific Applications:
- Phylogenetic Analysis: Prepares sequence alignments in PHYLIP format as input for phylogenetic inference and evolutionary studies.
- Metagenomic Studies: Enables format conversion within Galaxy workflows that include tools such as MetaGenSense and NGphylogeny.fr for metagenomic data analysis.
Methodology:
Converts FASTA alignments to PHYLIP and executes within the Galaxy framework using the Galaxy API or the Bioblend library to manage execution on the Institut Pasteur cluster.
Topics
Collections
Details
- Maturity:
- Mature
- Tool Type:
- web application
- Added:
- 12/19/2016
- Last Updated:
- 6/16/2020
Operations
Publications
Mareuil F, Doppelt-Azeroual O, Ménager H. A public Galaxy platform at Pasteur used as an execution engine for web services. Unknown Journal. 2017. doi:10.7490/f1000research.1114334.1.
Afgan E, Baker D, van den Beek M, Blankenberg D, Bouvier D, Čech M, Chilton J, Clements D, Coraor N, Eberhard C, Grüning B, Guerler A, Hillman-Jackson J, Von Kuster G, Rasche E, Soranzo N, Turaga N, Taylor J, Nekrutenko A, Goecks J. The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2016 update. Nucleic Acids Research. 2016;44(W1):W3-W10. doi:10.1093/nar/gkw343. PMID:27137889. PMCID:PMC4987906.