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Export populations as dataframe from a FlowJo workspace #149
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I figured out this issue. I had to downgrade Bioconductor to 3.13 for the CytoML, flowWorkspace, and flowcore to work. However, now I have a different issue. The exported cells do not match the original data either in the timestamp or the channel values. Somehow, the data is being transformed. I tried to switch off any transform flag in my functions. However, it is still the same. gs <- flowjo_to_gatingset(ws, name = 1, path = file.path(data_folder, "all-fcs-files"), execute = TRUE, transform = FALSE)
getdat <- gs_pop_get_data(gs, y = g, inverse.transform = FALSE) Any suggestions would be helpful. Thanks! |
See here RGLab/flowWorkspace#381 (comment) |
Hi there, I want to export populations as a data frame starting from a FlowJo workspace, and I am stuck after this step:
Also,
gate1dat
seems to be empty. I aim to load a FlowJo workspace, export events/cells per population, and concatenate them in a single file for all the samples. Any suggestions would be helpful. Thanks!The text was updated successfully, but these errors were encountered: