General Information
| Description | Web-based tool for visualizing and analyzing high-dimensional data as interactive and shareable heatmaps |
| Homepage | http://amp.pharm.mssm.edu/clustergrammer/ |
Publications
Clustergrammer, a web-based heatmap visualization and analysis tool for high-dimensional biological data
Most tools developed to visualize hierarchically clustered heatmaps generate static images. Clustergrammer is a web-based visualization tool with interactive features such as: zooming, panning, filtering, reordering, sharing, performing enrichment analysis, and providing dynamic gene annotations. Clustergrammer can be used to generate shareable interactive visualizations by uploading a data table to a web-site, or by embedding Clustergrammer in Jupyter Notebooks. The Clustergrammer core libraries can also be used as a toolkit by developers to generate visualizations within their own applications. Clustergrammer is demonstrated using gene expression data from the cancer cell line encyclopedia (CCLE), original post-translational modification data collected from lung cancer cells lines by a mass spectrometry approach, and original cytometry by time of flight (CyTOF) single-cell proteomics data from blood. Clustergrammer enables producing interactive web based visualizations for the analysis of diverse biological data.
Tool Parameters(required parameters are marked in bold, optional parameters in italic)
| Top Genes | Number of top genes displayed in the Clustergrammer heatmap visualization, as ranked by the ranking method. |
| Normalization Method | Method used to normalize the gene expression data displayed in the Clustergrammer visualization. |
| Normalization Axis | Axis along which the normalization has been performed. |
| Gene Rank Method | Metric used to rank the rows of the Clustegrammer matrix visualization. |
Canned Analyses
generated by the tool
Datasets
analyzed by the tool
FAIR Evaluation
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