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Pipeline scripts and tools for reconstructing Electron Microscopy volumes.

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EM_recon_pipeline

Pipeline scripts and tools for reconstructing Electron Microscopy volumes.

Setup

  1. If necessary, install miniconda.

Create Environment and Install

git clone https://github.com/JaneliaSciComp/EM_recon_pipeline.git

cd EM_recon_pipeline

conda env create -f janelia_emrp.environment.yml
conda activate janelia_emrp

poetry install

Development Library Management

  • Using conda with poetry as described here.
  • To change/update dependencies, edit pyproject.toml or use poetry add and then run poetry install.

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Pipeline scripts and tools for reconstructing Electron Microscopy volumes.

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