https://github.com/genepattern/stream.plot2dvisualization

UMap or TSNE validation plots
https://github.com/genepattern/stream.plot2dvisualization

genepattern-module rna-seq single-cell

Last synced: 11 days ago
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UMap or TSNE validation plots

• Host: GitHub
• URL: https://github.com/genepattern/stream.plot2dvisualization
• Owner: genepattern
• License: bsd-3-clause
• Created: 2019-09-03T16:53:48.000Z (over 5 years ago)
• Default Branch: master
• Last Pushed: 2020-02-06T22:36:05.000Z (almost 5 years ago)
• Last Synced: 2024-11-08T06:46:15.204Z (2 months ago)
• Topics: genepattern-module, rna-seq, single-cell
• Language: Python
• Size: 28 MB
• Stars: 1
• Watchers: 7
• Forks: 0
• Open Issues: 0
• Metadata Files:
  • Readme: README.md
  • License: LICENSE

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README

        
# STREAM.Plot2DVisualization

STREAM.Plot2DVisualization is used to check if there is clear meaningful trajectory pattern via TSNE or UMAP 2-D plots. 

If so, we can continue the STREAM analysis; If not, go back to previous steps (preprocessing, feature selection and dimension reduction) 

to modify the parameters.

[Full documentation](https://beta.genepattern.org/gp/getTaskDoc.jsp?name=urn:lsid:broad.mit.edu:cancer.software.genepattern.module.analysis:00406:0.12)