ArticleBMC bioinformatics2019
EvoFreq: visualization of the Evolutionary Frequencies of sequence and model data.
Article in BMC bioinformatics, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed.
- Evolution of clonal hematopoiesis during cancer treatment and its impact on outcomes.The Journal of clinical investigation · 2026Article
- Clonal Hematopoiesis Dynamics and Evolutionary Fitness During Cancer Treatment Impact Clinical Outcomes.medRxiv : the preprint server for health sciences · 2025Article
- Jellyfish: integrative visualization of spatio-temporal tumor evolution and clonal dynamics.Bioinformatics (Oxford, England) · 2025Article
- LinG3D: visualizing the spatio-temporal dynamics of clonal evolution.BMC bioinformatics · 2024Article
- A seven-step guide to spatial, agent-based modelling of tumour evolution.Evolutionary applications · 2024Review
- Tumor-immune metaphenotypes orchestrate an evolutionary bottleneck that promotes metabolic transformation.Frontiers in immunology · 2024Article
- Progenitor Hierarchy of Chronic Myelomonocytic Leukemia Identifies Inflammatory Monocytic-Biased Trajectory Linked to Worse Outcomes.Blood cancer discovery · 2022Article
- Gattaca: Base-Pair Resolution Mutation Tracking for Somatic Evolution Studies using Agent-based Models.Molecular biology and evolution · 2022Article
- Spatial structure impacts adaptive therapy by shaping intra-tumoral competition.Communications medicine · 2022Article
- Normal tissue architecture determines the evolutionary course of cancer.Nature communications · 2021Article
- Selection-driven tumor evolution with public goods leads to patterns of clonal expansion consistent with neutral growth.iScience · 2021Article
- Intra-Host Diversity of SARS-Cov-2 Should Not Be Neglected: Case of the State of Victoria, Australia.Viruses · 2021Article
- Key challenges facing data-driven multicellular systems biology.GigaScience · 2019Review
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Authors and funding
4 authors.
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No grant is acknowledged in the PubMed record.
Abstract
backgroundHigh throughput sequence data has provided in depth means of molecular characterization of populations. When recorded at numerous time steps, such data can reveal the evolutionary dynamics of the population under study by tracking the changes in genotype frequencies over time. This necessitates a simple and flexible means of visualizing an increasingly complex set of data.
resultsHere we offer EvoFreq as a comprehensive tool set to visualize the evolutionary and population frequency dynamics of clones at a single point in time or as population frequencies over time using a variety of informative methods. EvoFreq expands substantially on previous means of visualizing the clonal, temporal dynamics and offers users a range of options for displaying their sequence or model data.
conclusionsEvoFreq, implemented in R with robust user options and few dependencies, offers a high-throughput means of quickly building, and interrogating the temporal dynamics of hereditary information across many systems. EvoFreq is freely available via https://github.com/MathOnco/EvoFreq.
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