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RGLab / CytoML

A GatingML Interface for Cross Platform Cytometry Data Sharing
GNU Affero General Public License v3.0
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new API 'GatingSet2gatingML' #14

Closed mikejiang closed 7 years ago

mikejiang commented 7 years ago

Both GatingSet2flowJo and GatingSet2cytobank generate the psuedo gatingML files, which work pretty well for their own purposes. However the application described in #13 calls for a genuine gatingML to be used by flowSOM package. This can be done by leveraging existing modules from GatingSet2cytobank and disable the gate rescaling behavior.

mikejiang commented 7 years ago

After some more thoughts on this, I decide it is not worth to pursue this because the standard gatingML mainly focuses on the definition of individual gates in a flat structure, which is really not suitable for representing the gating hierarchy from GatingSet, which is why flowJo and cytobank came up their own format s in the first place.