PALMari

palmari

A pipeline for PALM movies analysis (pre-processing, localization, drifft correction, tracking)

Process your SPT-PALM recordings with PALMari's all-inclusive pipeline: spot detection, sub-pixel localization, tracking & more. Start quickly with default parameters or customize your pipeline, and run it on entire folder of microscope recordings.

Getting Help

Email Hippolyte Verdier : hverdier@pasteur.fr

Version:

  • 0.2.18

Last updated:

  • 13 January 2023

First released:

  • 06 May 2022

License:

  • "CeCILL"

Supported data:

  • Information not submitted

Plugin type:

GitHub activity:

  • Stars: 4
  • Forks: 0
  • Issues + PRs: 2

Python versions supported:

Operating system:

Requirements:

  • click
  • dask (>=2022.1.0)
  • dask-image (>=2021.12.0)
  • imageio-ffmpeg
  • magicgui (>=0.5.0)
  • matplotlib (>=3.5)
  • munkres
  • napari
  • nd2reader
  • numpy
  • pandas
  • pyyaml
  • qtpy
  • scikit-image (>=0.18.3)
  • scikit-learn
  • tiffile
  • toml
  • tqdm
  • trackpy (>=0.5.0)

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