PT  - JOURNAL ARTICLE
AU  - Chandler D. Gatenbee
AU  - Ryan O. Schenck
AU  - Rafael Bravo
AU  - Alexander R.A. Anderson
TI  - EvoFreq: Visualization of the Evolutionary Frequencies of Sequence and Model Data
AID  - 10.1101/743815
DP  - 2019 Jan 01
TA  - bioRxiv
PG  - 743815
4099  - http://biorxiv.org/content/early/2019/08/22/743815.short
4100  - http://biorxiv.org/content/early/2019/08/22/743815.full
AB  - High 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. Here 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. EvoFreq, 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.