jwindhager
BioImage Analyst / Research Software Engineer :microscope: :man_scientist: :man_technologist:
SciLifeLabUppsala, Sweden
Pinned Repositories
AdvanceImageAnalysisEMBO2023
napari-hierarchical
Complex bio-image file format support for napari
ome-ngff-readers-writers
Qualitative evaluation of OME-NGFF readers/writers at the Next generation bioimage analysis workflows hackathon 2023 in Zurich, Switzerland
tagbiljett
A command-line tool for querying SJ ticket prices
jwindhager's Repositories
jwindhager/tagbiljett
A command-line tool for querying SJ ticket prices
jwindhager/napari-hierarchical
Complex bio-image file format support for napari
jwindhager/ome-ngff-readers-writers
Qualitative evaluation of OME-NGFF readers/writers at the Next generation bioimage analysis workflows hackathon 2023 in Zurich, Switzerland
jwindhager/AdvanceImageAnalysisEMBO2023
jwindhager/cookiecutter-napari-plugin
Cookiecutter for napari plugins
jwindhager/napari
napari: a fast, interactive, multi-dimensional image viewer for python
jwindhager/napari-graph
Efficient graph data structures and algorithms for fast slicing, visualization, and editing
jwindhager/birka-feedstock
A conda-smithy repository for birka.
jwindhager/cytomapper
R package for visualization of highly multiplexed imaging data
jwindhager/ImagingDevelopersMeeting2023
Overview repository for the Multiplexed Image
jwindhager/ImagingWorkshop2023
Central repository for the Multiplexed Tissue Imaging Workshop 2023.
jwindhager/IMCDataAnalysis
R based workflow for multiplexed imaging data
jwindhager/imcRtools
An R package for handling and analysing imaging mass cytometry data
jwindhager/ImcSegmentationPipeline
A pixel classification based multiplexed image segmentation pipeline
jwindhager/IntroDataAnalysis
Repository for teaching and instruction purposes
jwindhager/mcd2zarr
Command line tool to convert MCD files to Zarr
jwindhager/modules
Repository to host tool-specific module files for the Nextflow DSL2 community!
jwindhager/napari-czifile2
Carl Zeiss Image (.czi) file support for napari
jwindhager/napari-imc
Imaging Mass Cytometry (IMC) file type support for napari
jwindhager/napari-labels2graph
A napari plugin to create spatial graphs from labels layers
jwindhager/napari-networkx
A napari plugin to read and write spatial graphs using networkx
jwindhager/napari-roi
Select regions of interest (ROIs) using napari
jwindhager/napping
Control point mapping and coordinate transformation using napari
jwindhager/ngff
Next-generation file format (NGFF) specifications for storing bioimaging data in the cloud.
jwindhager/npe2
jwindhager/readimc
Python package for reading imaging mass cytometry (IMC) files
jwindhager/steinbock
A toolkit for processing multiplexed tissue images
jwindhager/TestData
A central repository to store small datasets for testing purposes
jwindhager/tifffile
Read and write TIFF files. Forked from https://pypi.org/project/tifffile
jwindhager/xtiff
A tiny Python library for writing multi-channel TIFF stacks.