Up: Component summary Component

FijiFeatures

Uses Fiji to extract features from input images, segmented with masks.

Version 1.0
Bundle anima
Categories
Authors Miko Valori (miko.valori@helsinki.fi)
Issue tracker View/Report issues
Requires Fiji
Source files component.xml fijistart.py fijifeatures.sh
Usage Example with default values

Inputs

Name Type Mandatory Description
images ImageList Mandatory Grayscale images to be measured
mask ImageList Mandatory Mask images defining the measured objects

Outputs

Name Type Description
out CSV Table reporting the measured features

Parameters

Name Type Default Description
display boolean false Set to true to use the current DISPLAY. When false, tries to send screen to Xvfb (if installed), use with debugging etc..
fourConnected boolean false Use 4-connected objects? (default is 8-connected)
invert boolean false Set true to invert mask.
minArea int 0 Minimum area of objects to be measured
minCirc float 0 Minimum circularity for objects to be measured

Test cases

Test case Parameters IN
images
IN
mask
OUT
out
case1 properties images mask out

fourConnected=false,
metadata.timeout=30


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