Dimensionality reduction (DR) is a method for analyzing high-dimensional data that involves minimizing the number of variables taken into account. Data visualization in two or three dimensions frequently uses this technique. It has uses in several academic fields, including single-cell biology, deep learning, genomics, and astronomy. PCA, t-SNE, and UMAP are well-liked DR techniques for data visualization. These techniques, however, are susceptible to distortions and variability in the quality of the low-dimensional depiction, which might result in misunderstandings. The use of t-SNE or UMAP visualizations to verify cell-type identities, combine various datasets, and compute cell trajectories in single-cell biology areas might make this issue particularly difficult to solve.
When employing DR approaches to support research or validate results, it is crucial to consider these constraints properly. The interpretations in use mentioned above scenarios may be affected by distortions in the distances between observations and heterogeneities in the quality of the DR display. These distortions may lead to inaccurate cluster validation, the artificial creation or removal of ordering along metadata axes, and the artificial detection or failure to identify linkages between clusters. The static structure of existing DR visualization techniques, which typically only display a single initialization of the DR method, hides possible unpredictability in the visualization and leaves it open to cherry-picking, exacerbating the constraints of DR.
To solve these problems, DynamicViz was developed to provide dynamic visualizations by aligning several bootstrapped DR visuals. Users may comprehend the susceptibility of DR visualization to data perturbations and any stochastic components of the DR approach thanks to these dynamic visualizations, which offer more information than a single static visualization. It is possible to spot interpretative pitfalls with DynamicViz. They introduce the variance score to track a sample’s variation throughout the bootstrapped DR visualizations. The variance score precisely analyses sampling noise’s influence on the DR visualization distortions. The DR visualization workflow may be more effective using this score, which records the variation in real-world duplicates. In contrast, earlier quality metrics for assessing DR visualizations relied on the concordance of the visualization with the high-dimensional data. They have made DynamicViz available as an open-source Python library to make it simpler to utilize tools for assessing DR visualizations. The package may be obtained via PyPi and downloaded using pip.
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Aneesh Tickoo is a consulting intern at MarktechPost. He is currently pursuing his undergraduate degree in Data Science and Artificial Intelligence from the Indian Institute of Technology(IIT), Bhilai. He spends most of his time working on projects aimed at harnessing the power of machine learning. His research interest is image processing and is passionate about building solutions around it. He loves to connect with people and collaborate on interesting projects.