All pull requests

Pull requests

• Point VisCy and waveorder links at their Biohub GitHub home

  #539·alxndrkalinin opened Nov 6, 2026Collaborator·

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• docs(dynacell): point code links at applications/dynacell on main

  #538·alxndrkalinin opened Nov 4, 2026Collaborator·

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• Spotlight v2 segmentation-aware-loss

  #535·alxndrkalinin opened Oct 27, 2026Collaborator·

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  4

• feat(dynaclr): read per-FOV tracks from in-plate tracks.geff

  #525·ieivanov opened Oct 8, 2026Contributor·7 tasks done·

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• fix(viscy-utils): fail fast when ckpt_path does not exist

  #505·ieivanov opened Sep 29, 2026Contributor·

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  1

• Temporal straightening

  #493·edyoshikun opened Jul 27, 2026Collaborator·

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• DynaCLR models staging: requeue (#478) + rescale/LOT (#424) + temporal straightening (#493)

  #486·edyoshikun opened Jul 22, 2026Collaborator·

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• DynaCLR misc: CSV metadata sidecar, data-path profiling, DDP logging

  #485·edyoshikun opened Jul 22, 2026Collaborator·

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• chore(deps): bump iohub to >=0.3.10

  #482·edyoshikun opened Jul 21, 2026Collaborator·2 tasks·

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  1

• DynaCLR gut-cell training: per-cell Z centering, cell split, gut configs

  #481·edyoshikun opened Jul 20, 2026Collaborator·

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• lightning config for requeing jobs on a preempted slurm partition

  #478·edyoshikun opened Jul 1, 2026Collaborator·

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  8

• fix/embedding unique obs names

  #476·srivarra opened Jun 23, 2026Contributor·

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  1

• Revert "feat(cytoland): non-square rotation TTA + reuse helpers (#450)"

  #466·edyoshikun opened Jun 10, 2026Collaborator·

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• refactor(cytoland): unify VSUNet rotation TTA on rotation_tta_transforms

  #451·ieivanov opened Jun 3, 2026Contributor·2 tasks done·

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  5

• Rescale and LOT correction

  #424·Soorya19Pradeep opened May 19, 2026Contributor·

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  8

• Add viscy-phenotyping package for image-based feature extraction

  #410·Soorya19Pradeep opened Apr 24, 2026Contributor·

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  5

• Rescale data inference

  #393·edyoshikun opened Mar 27, 2026Collaborator·

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  6

• vae with temporal matching with positive pair

  #339·edyoshikun opened Nov 10, 2025Collaborator·

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  2

• Organelle segmentation and featurization for pseudotime analysis

  representation
  #323·edyoshikun opened Oct 14, 2025Collaborator·

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• Tracking with DynaCLR

  documentationenhancementrepresentation
  #318·JoOkuma opened Oct 2, 2025·

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• Compbio demo

  #148·mattersoflight opened Aug 28, 2024Collaborator·

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