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UMAP and ICI analysis

BG Bruno Guillotin
KB Kenneth D. Birnbaum

Last updated date: Mar 19, 2024 Views: 30 Forks: 0

original An abbreviated version of this protocol was published in Science in Dec, 2021
Ground tissue circuitry regulates organ complexity in maize and Setaria
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Here are the scripts and the data files.

Note that the large single cell data file on the first line of the import script is in any of the Seurat objects uploaded into GEO.

You will have to change the file to a csv format for the import.

The other files are in the Matlab workspace files zipped here.

Of course you have to change the paths in the import file.

 

I hope this helps.

Related files

temp ICI DATA FILESl.7z download
zip ICIanalysisMaize2.zip download
Copyright: © 2024 The Author(s); This is an open-access article under the CC BY-NC license (https://creativecommons.org/licenses/by-nc/4.0/).
How to cite：
Readers should cite both the Bio-protocol preprint and the original research article where this protocol was used:
  1. Guillotin, B and Birnbaum, K(2024). UMAP and ICI analysis. Bio-protocol Preprint. bio-protocol.org/prep2604.
  2. Ortiz-Ramírez, C., Guillotin, B., Xu, X., Rahni, R., Zhang, S., Yan, Z., Araujo, P. C. D., Demesa-Arevalo, E., Lee, L., Eck, J. V., Gingeras, T. R., Jackson, D., Gallagher, K. L. and Birnbaum, K. D.(2021). Ground tissue circuitry regulates organ complexity in maize and Setaria. Science 374(6572). DOI: 10.1126/science.abj2327

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