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Custom user dataset input #26

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hsmaan opened this issue Oct 2, 2023 · 3 comments
Open

Custom user dataset input #26

hsmaan opened this issue Oct 2, 2023 · 3 comments
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documentation Improvements or additions to documentation enhancement New feature or request

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@hsmaan
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hsmaan commented Oct 2, 2023

  • Currently there is still no infastructure in place for users to utilize their own datasets in the perturbation experiments and the Iniquitate pipeline
  • First step would be to begin by adding processing script for users h5ad inputs to get it set up and ready for the perturbation experiments
@hsmaan hsmaan added documentation Improvements or additions to documentation enhancement New feature or request labels Oct 2, 2023
@hsmaan hsmaan self-assigned this Oct 2, 2023
@hsmaan
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hsmaan commented Jan 23, 2024

PR for this here: #28

@hsmaan
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hsmaan commented Jan 23, 2024

Current documentation is completed. Soft goal is to have one custom analysis script to start (KNN classification), and will be expanded to other scripts in later PRs.

@hsmaan
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hsmaan commented Jan 23, 2024

Added initial documentation and custom user data KNN classification script. Outstanding custom scripts include:

  • Metrics + balanced metrics analysis
  • DGE
  • Trajectory inference
  • Leiden clustering
  • Cell type center distance + cell type support scripts

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