CellMap Flow

CellMap-Flow API:

  • Installation
  • Command line
  • Python Scripts
  • YAML Configuration
  • Data paths
  • HuggingFace Models
  • BioImage Model Zoo
  • Custom Model
  • PostProcessors
  • Plugins
  • Reviewing instances
  • Viewer layer API
  • Architecture
  • API Reference
    • cellmap_flow
      • Submodules
        • cellmap_flow.blockwise
        • cellmap_flow.cli
        • cellmap_flow.config
        • cellmap_flow.dashboard
        • cellmap_flow.finetune
        • cellmap_flow.globals
        • cellmap_flow.image_data_interface
        • cellmap_flow.inference
        • cellmap_flow.inferencer
        • cellmap_flow.io
        • cellmap_flow.jobs
        • cellmap_flow.logging_setup
        • cellmap_flow.models
        • cellmap_flow.norm
        • cellmap_flow.pipeline_spec
        • cellmap_flow.plugins
        • cellmap_flow.post
        • cellmap_flow.process_chain
        • cellmap_flow.review
        • cellmap_flow.review_index
        • cellmap_flow.server
        • cellmap_flow.serving
        • cellmap_flow.utils
        • cellmap_flow.viewer
CellMap Flow
  • API Reference
  • cellmap_flow
  • cellmap_flow.finetune
  • View page source

cellmap_flow.finetune

Human-in-the-loop finetuning for CellMap-Flow models.

This package provides lightweight LoRA-based finetuning for pre-trained models using user corrections as training data.

The names below are imported when first used (PEP 562): importing a light submodule – markers or job_manager.tailer, which the dashboard reads a training job’s log with – used to import torch, the trainer and the dataset code first.

Submodules

  • cellmap_flow.finetune.adaptation
  • cellmap_flow.finetune.build_corrections
  • cellmap_flow.finetune.cli
  • cellmap_flow.finetune.crop_loader
  • cellmap_flow.finetune.data
  • cellmap_flow.finetune.export_merged
  • cellmap_flow.finetune.finetune_cli
  • cellmap_flow.finetune.finetuned_model_templates
  • cellmap_flow.finetune.instance_flows
  • cellmap_flow.finetune.job_manager
  • cellmap_flow.finetune.json_files
  • cellmap_flow.finetune.lora_trainer
  • cellmap_flow.finetune.lora_wrapper
  • cellmap_flow.finetune.losses
  • cellmap_flow.finetune.markers
  • cellmap_flow.finetune.model_loading
  • cellmap_flow.finetune.run_outputs
  • cellmap_flow.finetune.session
  • cellmap_flow.finetune.session_loop
  • cellmap_flow.finetune.target_transforms
  • cellmap_flow.finetune.trainable
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© Copyright 2024, David Ackerman, Marwan Zouinkhi, Jeff Rhoades, Larissa Heinrich, Aubrey Weigel.

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