W-IQ-TREE

W-IQ-TREE performs maximum-likelihood phylogenetic inference and model selection for DNA, protein, codon, binary, and morphological sequence data.

Key Features:

• Sequence type support: Accepts DNA, protein, codon, binary, and morphological sequence data in common alignment formats.
• Maximum-likelihood inference: Implements IQ-TREE maximum-likelihood algorithms for tree reconstruction.
• Comprehensive model support: Supports mixture models and partition models for modeling evolutionary processes.
• Model selection: Performs rapid model selection to identify best-fit substitution models.
• Partition scheme identification: Identifies partition schemes for partitioned analyses.
• Ultrafast bootstrapping: Implements ultrafast bootstrap methods to estimate node support.
• Branch and topology tests: Provides branch tests and tree topology assessments for hypothesis evaluation.
• High-performance computing: Executes computational processes on a dedicated computer cluster.

Scientific Applications:

• Evolutionary biology: Infers phylogenetic relationships to study evolutionary patterns and processes.
• Molecular evolution: Analyzes sequence evolution and substitution patterns across genes or genomes.
• Comparative genomics: Reconstructs gene or species trees to support comparative genomic analyses.
• Biodiversity research: Resolves relationships among taxa to inform biodiversity and conservation studies.
• Phylogenetic hypothesis testing: Tests phylogenetic hypotheses using branch tests, topology assessments, and bootstrap support.

Methodology:

Performs maximum-likelihood phylogenetic analysis using IQ-TREE algorithms with model selection, partition scheme identification, mixture and partition models, ultrafast bootstrapping, branch tests, and tree topology assessments; computations run on a dedicated computer cluster.