EvoFreq

EvoFreq visualizes evolutionary frequency dynamics in high-throughput sequence data to characterize genotype, clonal, and population frequency changes across single and multiple time points.

Key Features:

• Visualization Capabilities: Visualizes clonal and population frequency dynamics at single time points and across multiple time steps.
• High-Throughput Analysis: Supports analysis and visualization of high-throughput sequence datasets to construct and interrogate temporal genotype frequency dynamics.
• Implementation: Implemented as an R package for computational analysis of sequence- or model-derived frequency data.
• Display Options: Provides a range of options for displaying sequence or model data.

Scientific Applications:

• Evolutionary biology: Characterizes temporal genotype frequency changes to study evolutionary processes.
• Population genetics: Visualizes genotype and clonal frequency dynamics to inform population genetics analyses.
• Oncology: Tracks clonal and genotype frequency trajectories relevant to tumor evolution and disease progression.

Methodology:

Implemented as an R package; provides methods for displaying sequence or model data and for visualizing clonal and population genotype frequency dynamics across single and multiple time points from high-throughput sequence or model outputs.