ASTRAL-Pro 2

ASTRAL-Pro 2 infers species trees from multi-copy gene family trees for accurate species-tree estimation in phylogenomic datasets with gene duplication and loss.

Key Features:

• Placement-Based Optimization Algorithm: Employs a placement-based optimization algorithm to improve scalability of species tree inference.
• Memory Efficiency and Speed: Reduces memory usage and processing time to enable analysis of large genomic datasets.
• Compatibility with Multi-Copy Gene Trees: Accepts multi-copy gene family trees as input to accommodate gene duplication and loss in phylogenomic analyses.

Scientific Applications:

• Species tree estimation from multi-copy gene families: Inferring species trees using gene family trees that contain multiple copies per genome.
• Large-scale phylogenomic analyses: Scalable analysis of extensive genomic datasets for reconstructing species relationships.
• Evolutionary studies involving duplication and loss: Resolving relationships among species with complex genomic architectures shaped by gene duplication and loss.

Methodology:

Uses a placement-based optimization algorithm to infer species trees from multi-copy gene family trees while reducing memory and computational demands and maintaining accuracy.