Skip to main content

Imaging Mass Cytometry (IMC) file type support for napari

Project description


napari hub PyPI License Python Version Issues Pull requests

Imaging Mass Cytometry (IMC) file type support for napari

Load panoramas and multi-channel acquisitions co-registered within the machine's coordinate system from Fluidigm TXT/MCD files


You can install napari-imc via pip:

pip install napari-imc

Alternatively, you can install napari-imc via conda:

conda install -c conda-forge napari-imc

For example, to install napari and napari-imc in a fresh conda environment using pip:

conda create -n napari-imc python=3.9
conda activate napari-imc
pip install "napari[all]" napari-imc


Simply open your Fluidigm TXT/MCD file using napari.


Created and maintained by Jonas Windhager


Please cite the following paper when using napari-imc in your work:

Windhager J, Bodenmiller B, Eling N (2021). An end-to-end workflow for multiplexed image processing and analysis. bioRxiv. doi:

  author = {Windhager, Jonas and Bodenmiller, Bernd and Eling, Nils},
  title = {An end-to-end workflow for multiplexed image processing and analysis},
  year = {2021},
  doi = {10.1101/2021.11.12.468357},
  URL = {},
  journal = {bioRxiv}







Project details

Download files

Download the file for your platform. If you're not sure which to choose, learn more about installing packages.

Source Distribution

napari-imc-0.6.5.tar.gz (19.9 kB view hashes)

Uploaded source

Built Distribution

napari_imc-0.6.5-py3-none-any.whl (24.7 kB view hashes)

Uploaded py3

Supported by

AWS AWS Cloud computing and Security Sponsor Datadog Datadog Monitoring Fastly Fastly CDN Google Google Download Analytics Microsoft Microsoft PSF Sponsor Pingdom Pingdom Monitoring Sentry Sentry Error logging StatusPage StatusPage Status page