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BuddySuite

BuddySuite

BuddySuite is a collection of four related tools:
1. SeqBuddy is a tool to handle FASTA, GenBank, and NEXUS sequence file formats. SeqBuddy includes functions to manipulate and analyze sequence data using 50+ separate tool modules.
2. AlignBuddy: 30 separate tool modules to read, write, analyze, and manipulate PHYLIP, Stockholm, and NEXUS sequence alignment files.
3. PhyloBuddy: Consists of 18 tool modules to manage and manipulate phylogenetic trees in NEXUS, Newick, and NeXML formats.
4. DatabaseBuddy: Contains function to search NCBI, UniProt, and Ensembl databases. The DatabaseBuddy algorithms can sort and filter the search results.

Topic

Sequencing; Sequence analysis; Phylogenetics; Nucleic acid structure analysis

Details

  • Operation: Sequence analysis; Phylogenetic tree reconstruction; Sequence alignment
  • Software interface: Command-line user interface
  • Language: Python
  • Operating system: Linux; Mac OS X; Microsoft Windows
  • License: Public domain
  • Cost: Free
  • Version name: 1.3.0
  • Credit: The Intramural Research Program of the National Human Genome Research Institute, National Institutes of Health.
  • Contact: andy _at_ mail.nih.gov
  • Collection: -

Publications

Bond SR, Keat KE, Barreira SN, Baxevanis AD "BuddySuite: Command-Line Toolkits for Manipulating Sequences, Alignments, and Phylogenetic Trees." Mol. Biol. Evol. 2017; 34(6):1543-1546 https://doi.org/10.1093/molbev/msx089
PMID: 28333216
PMCID: PMC5850830


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