{"repo":"YYT1002/FeatureMAP","free":true,"listed":false,"github":"https://github.com/YYT1002/FeatureMAP","clone":"git clone https://github.com/YYT1002/FeatureMAP.git","description":"FeatureMAP (Feature-preserving Manifold Approximation and Projection) is an interpratable dimensionality reduction tool.","language":"Python","stars":20,"topics":["data-visualization","dimensionality-reduction","interpretable-machine-learning","single-cell-analysis","tangent-space-embedding"],"license":"BSD-3-Clause","category":"analytics","readme_excerpt":"FeatureMAP: Feature-preserving Manifold Approximation and Projection Visualizing single-cell data is essential for understanding cellular heterogeneity and dynamics. FeatureMAP enhances this process by introducing gene projection and transition/core states , providing deeper insights into cellular states. While traditional methods like UMAP and t-SNE effectively capture clustering, they often overlook critical gene-level information. FeatureMAP addresses this limitation by integrating concepts from UMAP and PCA, preserving both clustering structures and gene feature variations within a low-dimensional space. Description FeatureMAP presents a novel approach by enhancing manifold learning with pairwise tangent space embedding, ensuring the retention of crucial cellular data features. It introduces two visualization plots: expression embedding (GEX) and variation embedding (GVA). Here, we demonstrate its effectiveness using a synthetic dataset from (BEELINE) based on a bifurcation model. Compared to UMAP, FeatureMAP-GEX better preserves cell density, while FeatureMAP-GVA clearly delineates developmental paths. Besides the two-dimensional visualization, FeatureMAP presents three key concepts: 1. Gene Projection : Estimating and projecting gene feature loadings, where arrows indicate the direction and magnitude of gene expression changes. 2. Transition and Core States : Transition and core states are computationally defined based on cell density, curvature, and betweenness central","default_branch":null,"files":null,"tree":[],"storefront":"/r/YYT1002","claimed":false,"request_supported":{"post":"https://gitbuyer.com/r/YYT1002/FeatureMAP/request-supported","requests":0},"note":"indexed from public GitHub; nothing is for sale on this page. Clone it from GitHub. Paid listings live at /search."}