BodenmillerGroup / imcdatasets

ExperimentHub collection of imaging mass cytometry datasets
https://bodenmillergroup.github.io/imcdatasets/
GNU General Public License v3.0
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Zanotelli dataset #10

Closed ndamond closed 3 years ago

ndamond commented 3 years ago

Adding dataset from Zanotelli et al (2016) Mol Syst Biol

ndamond commented 3 years ago

Added a new issue for the altExp point (https://github.com/BodenmillerGroup/imcdatasets/issues/11#issue-870006846). It will be fixed later on as this requires to re-upload the dataset to ExperimentHub. The scaling on Vito's images looks good:

> images <- ZanotelliSpheroids2020Data(data_type = "images")
> images[[1]]
Image 
  colorMode    : Grayscale 
  storage.mode : double 
  dim          : 321 318 51 
  frames.total : 51 
  frames.render: 51 

imageData(object)[1:5,1:6,1]
     [,1] [,2] [,3] [,4] [,5] [,6]
[1,]    0    2    9    2    0    1
[2,]    0    0    3    0    0    1
[3,]    1    0    0    5    1    3
[4,]    2    0    0    3    2    1
[5,]    1    2    2    0    0    1
nilseling commented 3 years ago

Very nice!