bodenmillergroup Goto Github PK
Type: Organization
bodenmillergroup's Projects
histoslider
HistoSlider project
ilastik
ilastik-shell, applets, and workflows to string them together.
imagingdevelopersmeeting2023
Overview repository for the Multiplexed Image
imagingworkshop2023
Central repository for the Multiplexed Tissue Imaging Workshop 2023.
imcdataanalysis
R based workflow for multiplexed imaging data
imcdatasets
ExperimentHub collection of imaging mass cytometry datasets
imcpluginscp
CellProfiler plugins for multiplexed image analysis
imcrtools
An R package for handling and analysing imaging mass cytometry data
imcsegmentationpipeline
A pixel classification based multiplexed image segmentation pipeline
imcsegmentationsnakemake
The repository for the Snakemake implementation of the ImcSegmentationPipeline
imctoolkit
Python package for processing segmented multi-channel images
imctools
Tools to handle IMC data
imcworkflow
Overview repository on IMC data analysis
imcyto
UNDER CONSTRUCTION: Image Mass Cytometry analysis pipeline
imdlib
IMD file parser library
immucan-roi
IMMUcan ROI selection using napping and napari-roi
introdataanalysis
Repository for teaching and instruction purposes
mcd2zarr
Command line tool to convert MCD files to Zarr
mcdlib
MCD file parser library
melanomaimc
check static webpage here:
mi_sampling_study
Code and scripts used to perform spatial sampling analysis as described in "Optimizing multiplexed imaging experimental design through tissue spatial segregation estimation"
misegmentation
Analyzing the performance of the ImcSegmentationPipeline
mitamura-schulz_skin_rash
Covid skin rash analysis
napari-czifile2
Carl Zeiss Image (.czi) file support for napari
napari-hierarchical
Complex bio-image file format support for napari
napari-imc
Imaging Mass Cytometry (IMC) file type support for napari
napari-labels2graph
A napari plugin to create spatial graphs from labels layers
napari-networkx
A napari plugin to read and write spatial graphs using networkx
napari-roi
Select regions of interest (ROIs) using napari
napping
Control point mapping and coordinate transformation using napari
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