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Using curation with ms4alg.sort #22
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Hello has this been answered elsewhere as I need to understand that as well. |
The docs will need to be updated. For now, please see the following for an
example: https://github.com/edeno/franklab_sorting_pipeline
…On Thu, Sep 26, 2019 at 11:35 AM dragospekic ***@***.***> wrote:
Hello has this been answered elsewhere as I need to understand that as
well.
The sorting batch example doesn't seem to explain how to do automatic
curation:
https://github.com/flatironinstitute/mountainsort_examples/blob/master/bash_examples/001_ms4_bash_example/ms4_sort_bash.sh
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I can't find any reference to the curation with ms4alg itself in that link. It's all python code, and the call to ml_ms4alg doesn't include a curation parameter. Am I missing something here? |
See the code in here: https://github.com/edeno/franklab_sorting_pipeline/blob/master/sort_animal_day.py It computes metrics used for curation, makes a label map, and applies a label map. |
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Based on the MS3 docs it seems the
curate
flag needs to be set to true to run automatic curation. Is there documentation on how to do this withms4alg.sort
?The text was updated successfully, but these errors were encountered: