Pinned Repositories
custom-prefect-result
Custom Prefect Result (CPR) enables task-run result caching in Prefect, while keeping the result data in any file-format e.g. tiff-file for image data or csv-file for tabular data.
faim-ipa
A collection of Image Processing and Analysis (IPA) functions used at the Facility for Advanced Imaging and Microscopy (FAIM)
faim-prefect
Utility functions for workflows.
fmi-ij2-plugins
A collection of ImageJ2 plugins for use with KNIME
imagej-scripts
ipa-project-template
Copier template for image processing & analysis projects.
N2V2_Experiments
napari-psf-analysis
A napari plugin to analysis point spread functions.
napari-save-transformed
Save image layers with their transformation applied
visiview-scripts
A collection of macros for the VisiView acquisition software
FAIM's Repositories
fmi-faim/faim-ipa
A collection of Image Processing and Analysis (IPA) functions used at the Facility for Advanced Imaging and Microscopy (FAIM)
fmi-faim/custom-prefect-result
Custom Prefect Result (CPR) enables task-run result caching in Prefect, while keeping the result data in any file-format e.g. tiff-file for image data or csv-file for tabular data.
fmi-faim/napari-psf-analysis
A napari plugin to analysis point spread functions.
fmi-faim/fmi-ij2-plugins
A collection of ImageJ2 plugins for use with KNIME
fmi-faim/ipa-project-template
Copier template for image processing & analysis projects.
fmi-faim/faim-prefect
Utility functions for workflows.
fmi-faim/napari-save-transformed
Save image layers with their transformation applied
fmi-faim/eicm
Functions to estimate illumination correction matrices from reference illumination samples.
fmi-faim/faim-wako-searchfirst
Python scripts for the SearchFirst option in Wako Software Suite
fmi-faim/diy-tools
fmi-faim/n2v-tasks
A collection of tasks to use Noise2Void.
fmi-faim/cluster_tools
Distributed segmentation for bio-image-analysis
fmi-faim/em-tasks
fmi-faim/example-project
fmi-faim/faim-fiji
Custom Fiji bundle for distribution via conda
fmi-faim/fmi-knime-update-site
KNIME Extensions for Image Processing at the FMI Basel
fmi-faim/fmi-trackmate-addons
Addons for TrackMate in ImageJ
fmi-faim/metamorph-mda-parser
Light-weight parsing of Metamorph/VisiView Multi Dimensional Acquisition .nd files.
fmi-faim/mobie-utils-python
Python tools for MoBIE
fmi-faim/mobie-viewer-fiji
fmi-faim/mobiedantic
Pydantic models for MoBIE projects and datasets
fmi-faim/napari
napari: a fast, interactive, multi-dimensional image viewer for python
fmi-faim/ngff
Next-generation file format (NGFF) specifications for storing bioimaging data in the cloud.
fmi-faim/pixi-psf
Pixi project to run napari-psf-analysis
fmi-faim/prefect-cellpose
fmi-faim/prefect-faim-hcs
fmi-faim/prefect-n2v
Noise2Void Prefect workflows.
fmi-faim/prefect-workflows
A collection of Prefect workflows.
fmi-faim/rattler-elastix
Conda recipe for elastix
fmi-faim/staged-recipes
A place to submit conda recipes before they become fully fledged conda-forge feedstocks