2020年10月3日 · library(umap) # 使用umap函数进行UMAP降维分析 iris.umap = umap::umap(iris.data) iris.umap ## umap embedding of 150 items in 2 dimensions ## object components: layout, data, knn, config # 查看降维后的结果 head(iris.umap$layout) ## [,1] [,2] ## [1,] 12.59949 3.759360 ## [2,] 13.80894 5.272737 ## [3,] 14.43500 4.813293

降维算法有基于 线性 模型的 PCA，也有基于 非线性 的 tSNE 和 UMAP 等方法。 示例数据和代码领取 详见：

UMAP (Uniform Manifold Approximation and Projection) 算法是一种创新的降维流形学习算法。 来自于拓扑数据分析。 可以用于类似于 t-SNE 的可视化，但也可以用于一般的非线性降维。 文章里的这个图可以看出， sars-cov-2 感染患者的血清 组学数据 与健康个体的组学数据得到了很好的分辨，而其他组则表现出一定程度的分离。 注：示例数据仅作展示用，无实际意义！ 很显然，重点在于umap分析，可视化只是常见的散点图。 #n_neighbors 用似的局部邻域的大小(根据邻域 …

Uniform Manifold Approximation and Projection (UMAP) is an algorithm for dimensional reduction. Its details are described by McInnes, Healy, and Melville and its official implementation is available through a python package umap-learn.

Uniform manifold approximation and projection is a technique for dimension reduction. The algorithm was described by McInnes and Healy (2018) in <arXiv:1802.03426>. This package provides an interface for two implementations. One is written from scratch, including components for nearest-neighbor search and for embedding.

2022年1月10日 · In this tutorial, we will learn how to perform dimensionality reduction using UMAP in R and learn make a UMAP plot using ggplot2 in R. We will use Palmer Penguin dataset to make a UMAP plot in R. We will perform umap using the R package umap. Let us load the packages needed and set the simple b&w theme for ggplot2 using theme_set () function.

2021年5月10日 · UMAP是一种非常有效的可视化和可伸缩降维算法。 在可视化 质量方面，UMAP算法与t-SNE具有竞争优势，但是它保留了更多全局结构、具有优越的运行性能、更好的可扩展性。 此外，UMAP对嵌入维数没有计算限制，这使得它可以作为机器学习的通用维数约简技 …

R implementation of Uniform Manifold Approximation and Projection. Uniform manifold approximation and projection (UMAP) is a technique for dimensional reduction. The original algorithm is described by McInnes, Heyes, and Melville and is …

2019年12月16日 · conda install -n r-reticulate -c conda-forge umap-learn conda activate r-reticulate; pip install umap-learn 解决： library (reticulate) py_available (） #结果若为FALSE则 …

UMAP 全称是：Uniform Manifold Approximation and Projection，中文可以叫做：统一流形近似与投影。 Manifold learning is an approach to non-linear dimensionality reduction.