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cole-trapnell-lab / garnett

Automated cell type classification
MIT License
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Run time to train new classifier #61

Closed lwtan90 closed 1 year ago

lwtan90 commented 2 years ago

Hi,

Thank you for creating the tool. I am trying to build new classifier using a total of 100 markers using a total of 5000 cells (train_cell_classifier). I wonder how long it will take usually because currently it has been stagnant at the stage of "There are 9 cell type definitions". Thank you.

Wilson

hpliner commented 2 years ago

Hi, Sounds like something has gone wrong here, going from the message you quoted to the list of example cells found should be quite quick (a few minutes max). Can you try running the example on the website? Does that work ok? https://cole-trapnell-lab.github.io/garnett/docs_m3/#1b-train-your-own-classifier

hpliner commented 1 year ago

Closing, reopen if this remains an issue