Poplar

Poplar streamlines the construction of phylogenetic trees from genomic data by providing a computational framework that runs state-of-the-art software for essential steps in the phylogenetic pipeline, beginning from a genome with or without an annotation and resulting in a species tree.

Key Features:

• Parallel Execution: Poplar enables parallelism for execution on clusters and cloud computing.
• No External Databases Required: Running Poplar requires no external databases.
• Flexible Input: Poplar accepts genomes with or without annotations as starting input.
• State-of-the-art Software Integration: Poplar provides a framework that runs state-of-the-art software for essential steps in the phylogenetic pipeline.

Scientific Applications:

• Phylogenetic Tree Generation: Poplar constructs species trees from genomic data for understanding biological systems.
• Comparative Genomics: Poplar facilitates analysis of publicly available genetic data across a wide selection of known species.

Methodology:

Poplar is implemented using Python and supported on Linux. The pipeline begins from a genome with or without an annotation and results in a species tree.