jkj2110@gmail.

com
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Free NIH software for Image Processing and Data analysis
rsbweb.nih.gov/ij/

Opening pictures
1. Click Menu: File – Open –
Open Next
2. Simply drag picture from
the opened folder
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Opened IMAGE pop-up menu

Key commands:
Rename
Duplicate
Startup macro
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IMAGE processing and analysis

Adjusting:
Brightness/Contrast
Color Balance
Threshold
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Brightness/Contrast
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Threshold – regular 8 bit image

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Threshold – RGB image

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Enhancing Contrast and Finding Egdes

CONTRAST

EDGES
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Analysis tools – Histogram/Particle Counting

PARTICLE COUNTING HISTOGRAM

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Analysis tools – Object Counting

Calculating objects:
Initialize
Select Type
Click on countable objects
Show results
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Analysis tools – Object Counting

PHOTOSHOP
Free trial from: www.adobe.com/downloads/
Full version: http://www.nyumc.net/nyu/mcit/services/software/keyserver.jsp#acrobat
* install the key access first

Photoshop CS5 Extended – PC version

PHOTOSHOP CS5

IMAGE adjustment – basic function

Image – Adjustment – Brightness/Contrast

PHOTOSHOP CS5

Merging images

Select 1st image you want to merge – copy (Ctrl = C) – create new (Ctrl – N)
Paste image in appropriate channel – repeat this step for next images
– save new image (Ctrl – S)
PHOTOSHOP CS5

Working with layers

To keep the original image intact

- Duplicate layer
- Work with the new layer only
- Adjust brightness/contrast
- Save new image with all layers (for reference)
PHOTOSHOP CS5

Adding text and scale bar

Adding Text – text tool from the left side menu

Adding scale bar
- measure the size of your image
- compare with reference scale bar
(Leica, Zeiss software)
- pick rectangle tool (left side menu)
- draw the bar in chosen location
PHOTOSHOP CS5

Making selection
PHOTOSHOP CS5

Adjusting image resolution for publication

Original image – 72 dpi

Resized image – 300 dpi

Open original image (usually 72dpi), select (Ctrl-A) and copy it (Ctrl – C)
Create new image (Ctrl –N) - adjust resolution settings, - paste original image
(Ctrl – V) - check settings (Image size) and save as a high resolution image