Tangerine: A Python framework for dynamic gene regulation analysis from transcriptomic time series
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Motivation
Time-series single-cell transcriptomics enables the study of dynamic gene regulation. However, standard computational tools frequently aggregate temporal data into static, dense topologies, obscuring the precise regulatory rewiring that drives developmental transitions. Further, navigating the inherent noise of statistical inference without losing biological interpretability remains an important bottleneck.
Results
We present Tangerine, a Python framework for the dynamic reconstruction and interactive exploration of time-varying gene regulatory networks. Tangerine integrates time-constrained metacell aggregation with regularized linear modelling and non-parametric correlation to infer dynamic topologies. To solve the interpretability gap, it features a browser-based visual analytics engine. Tangerine empowers researchers to track macroscopic gene module evolution, interactively filter effect sizes, and link topological rewiring directly to raw transcriptomic evidence.
Availability and implementation
Tangerine is implemented in Python and Plotly Dash. The code is available on Github at https://github.com/ntanmayee/tangerine .
