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Though unusual, the GatingML specification does allow for a gate with dimensions that reference 2 (or more) compensation matrices. Currently, FlowKit does not support this scenario and requires that a…
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Good morning, I have the FCS files from FlowCAP-II AML: https://flowrepository.org/id/FR-FCM-ZZYA
I wonder how can I perform automatic compensation by using FlowKit, I have tried the Flowultils com…
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Hi all,
I am reading in an xml file created from cytobank with read.gatingML.cytobank() and subsequently create a gatingSet with cytobank2GatingSet(). When I then call getData on this gatingSet, th…
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Flow data often time has off-boundary events
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I used the following command CytoML::GatingSet2flowJo(manual_gs, outFile = "./manual_gs.xml") to generate an .xml file for a gatingset.
The error in the uploaded file seems to be on line 20: The pre…
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I am trying to compare values from FCS files after importing gates from Cytobank (which applies asinhtGml2 transform) to a static value (Example: 100). Applying the asinhtGml2 to 100 doesn't seem to w…
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Tried uploading gatingML file exported from cytobank using the "read.gatingML.cytobank" function.
Received this error:
Error in orig_params[ind] : invalid subscript type 'list' uploading gatingML f…
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On 05/10/2017 05:33 AM, Chris Ciccolella wrote:
> Ah, so, Cytobank does accept the scale settings on a per-gate basis in the gatingml, it just doesn't set the experiment scales to match. The end …
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On 06/19/2017 04:23 PM, Chris Ciccolella wrote:
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> Maybe you can double check this but we can't get it to work. This is when you have the same gate but in a slightly different location between samp…
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At the moment there has not been any gating functionality implemented.
The most basic gate would be a rectangle polygon gate, and would produce a "sub sample" containing all samples within the poly…