We developed the package scMetric to apply ITML algorithm on gene expression data. The package let users to assign a few pairs of cells that are similar with each other and assign a few pairs of dissimilar cells. With this weak training information, scMetric learns the metric A to best preserve the similarity and dissimilarity reflected in the training pairs. It then employs t-SNE to visualize the data using this metric. The package also outputs the t-SNE map using the conventional Euclidean distance metric. The learned metric A as well as the key genes that compose most weights in the metric can also be output to other analysis methods that need a distance or similarity metric.
Package details |
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Author | Wenchang Chen |
Maintainer | Wenchang Chen <chenwc17@mails.tsinghua.edu.cn> |
License | GPL-3 |
Version | 1.0.1 |
Package repository | View on GitHub |
Installation |
Install the latest version of this package by entering the following in R:
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