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Automatic thresholding
Batch exploration of segmentation results
Big image data formats
Cloud based batch analysis
Cloud based interactive analysis
Connected component labeling
Convolutional filters
Correlative image rendering
Data types
Digital image basics
Distance transform
Fluorescence microscopy image formation
Global background correction
Image data formats
Local background correction
Lookup tables
Median filter
Morphological filters
Multichannel images
N-dimensional images
Neighborhood filters
Object filtering
Object intensity measurements
Object shape measurements
OME-TIFF
OME-Zarr
Projections
Segmentation overview
Skeletonization
Smart microscopy targeted imaging
Spatial calibration
Statistical (rank) filters
Thresholding
Tool installation
Volume rendering
Volume slicing
Watershed
Batch processing
Coding with LLMs
Functions
Loops
Output saving
Recording a script
Running a script
Strings and paths
Variables
Noisy object segmentation and filtering in 2D
Nuclei and cells segmentation
Nuclei segmentation and shape measurement
Quantitative image inspection and presentation
Bioimage tools containers
Deep learning instance segmentation
Image registration (DRAFT)
Manual segmentation
Remote (image) data access
Similarity transformations
Table file formats (DRAFT)
Template
Commenting
Fetching user input
Setting up a scripting environment
Cofilin rod formation (DRAFT)
Segment Golgi objects per cell
Module overview
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Setup
For a detailed setup instructions see the
Tool installation
module