Commit d19c0e8e authored by Toby Hodges's avatar Toby Hodges

keep example images file

parents 2d8c37a2 97810a4c
File deleted
*.DS_Store
# Guidelines for Contributing
Contributions to this project are very welcome.
Changes should be submitted by merge request from a new branch to `master`.
Merge requests should be reviewed by at least one Maintainer before merging.
See `README.md` for information on the structure of the repository.
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name="object splitting by intensity based watershed" id="5837516c-b5b2-edce-1e43-8044be048399">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</diagram><diagram name="distance map" id="78cf0561-c1f7-15c4-bf42-4f7029552785">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</diagram><diagram name="distance measurement workflow" id="b8537f4e-cbc0-e357-f950-f0f82605ee09">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</diagram><diagram name="object splitting by shape based watershed" id="abf6fe68-e85e-4010-3d0c-193ec182c2a1">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</diagram></mxfile>
\ No newline at end of file
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name="rank filter sequences for binary images" 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id="d90347d7-6f27-cfa0-7104-3a9be3602e8c" name="local background subtraction using median filter">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</diagram><diagram name="local background subtraction using tophat filter" id="e4fc1f18-300f-d460-48f9-8f21ced1c710">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</diagram></mxfile>
\ No newline at end of file
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\ No newline at end of file
# Image Ethics: Lookup tables
## Concepts
<img src='https://g.gravizo.com/svg?
digraph G {
lookup_table_settings -> image_appearance [label=" change"];
image_appearance -> scientific_message [label=" changes"];
}
'/>
<img src='https://g.gravizo.com/svg?
digraph G {
responsible_scientist -> lookup_table_settings [label=" configures thoughtfully"];
}
'/>
## Teaching
Work through examples where changing lookup-table settings changes the scientific message.
# Image binarization
## Requirements
To understand this episode you need to know:
- A
- B
- C
## Motivation
Few sentences.
## Learning objectives
- Understand the relationship between an intensity image and a derived binary image.
- Execute binarization on an image.
## Concept map
<img src='https://g.gravizo.com/svg?
digraph G {
shift [fontcolor=white,color=white];
"pixel values" -> "foreground\n1,255" [label = " >= threshold"];
"pixel values" -> "background\n0" [label = " < threshold"];
"foreground\n1,255" -> "binarised pixel values"
"background\n0" -> "binarised pixel values"
}
'/>
## Example
![binarization_figure_00](../figures/binarization_concept_example.png)
## Activity
## Formative assessment
Quizz or something
## Follow-up material
- [http:// ](next module in this repo)
## Learn more
External links...
directory = getDirectory("Choose Input Directory");
outputDirectory = getDirectory("Choose Output Directory");
threshold = getNumber("Please enter threshold", 10);
// clean up
run("Close All");
close("*.csv");
// configure output
outputTablePath = outputDirectory + "results_threshold=" + threshold + ".csv";
fileList = getFileList(directory);
setBatchMode( true );
for (i = 0; i < fileList.length; i = i + 1) {
if ( endsWith(fileList[i], ".tif") ) {
filePath = directory + fileList[i];
// clean up
run("Close All");
// open data
open( filePath );
// segment nuclei
segmentNuclei( threshold );
// measure nuclei properties
run("Set Measurements...", "area display redirect=None decimal=3");
run("Analyze Particles...", "summarize");
}
}
// save results table
print( "Saving: " + outputTablePath );
saveAs("Results", outputTablePath );
close("*.csv");
setBatchMode( true );
// FUNCTIONS
function segmentNuclei( threshold ) {
setThreshold( threshold, 255);
setOption("BlackBackground", true);
run("Convert to Mask");
}
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