Photoshop CS3 Extended for BioMedical Research
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Photoshop CS3 Extended for BioMedical Research

with Eric Wexler

Video: Creating a selection using Color Range

In this movie, we are going to use the Color Range command to collect information about the colonies. If you are following along with me, open up Colony Count in the Chapter 10 Exercise folder. Now we see groupings of colonies and we are going to use the Color Range tool to create the selection just of the colonies. So we go up to Select, pull down Color Range, and this opens up a different way to create a selection. We can change the Preview to None so we are able to actually see the picture that we are going to want to identify a certain type of color for Photoshop to trace around. In this case, we are going to be looking at the white colonies. And we have Fuzziness, which is basically how large a range around what area we identify will the selection be created. So we will drop this down to about 50, which is a good place to start. And now we bring our cursor over, click in the middle of the colony, and we can see in our Preview box that we have selected the multiple colonies. And we can also change the Selection Preview to look at it under Grayscale, or a Black or White Matte if that would optimize our viewing, or a Quick Mask. And this way we can see that we really have identified and selected the white colonies.
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  1. 7m 56s
    1. Welcome
      2m 39s
    2. Disclaimer
      1m 44s
    3. Exercise files
      45s
    4. Understanding Photoshop CS3 Extended
      1m 41s
    5. Understanding which versions are covered
      1m 7s
  2. 20m 30s
    1. Understanding imaging in biomedical research
      5m 15s
    2. Understanding research image workflows
      4m 6s
    3. Understanding image fundamentals
      3m 29s
    4. Understanding image detection
      7m 40s
  3. 16m 47s
    1. Understanding digital images
      5m 28s
    2. Understanding image file types
      6m 33s
    3. Understanding objective imaging
      4m 46s
  4. 22m 1s
    1. Understanding the default workspace
      4m 0s
    2. Creating a custom workspace
      5m 31s
    3. Working with keyboard commands
      4m 20s
    4. Customizing preferences for research
      3m 50s
    5. Understanding the History Log
      4m 20s
  5. 18m 9s
    1. Learning to always work from a copy
      2m 23s
    2. Opening files in Photoshop
      4m 13s
    3. Introduction to Adobe Bridge 2.0
      2m 25s
    4. Using the Adobe Camera Raw Converter
      3m 34s
    5. Using the DICOM Importation interface
      4m 18s
    6. Working with scanned image sets
      1m 16s
  6. 13m 46s
    1. Organizing images
      5m 0s
    2. Applying rank, keywords, and filters
      6m 9s
    3. Working with image stacks
      2m 37s
  7. 27m 54s
    1. Understanding color modes
      4m 27s
    2. Understanding the Info panel
      7m 49s
    3. Reading the Histogram panel
      5m 48s
    4. Understanding color composition with channels
      6m 9s
    5. Comparing multiple images
      3m 41s
  8. 25m 19s
    1. Resizing images
      5m 0s
    2. Resizing the image canvas
      8m 11s
    3. Joining images with compositing
      7m 8s
    4. Using Auto Align and Auto Blend
      2m 5s
    5. Applying a threshold to an image
      2m 55s
  9. 23m 45s
    1. Considering adjustments
      2m 19s
    2. Understanding exposure controls
      1m 7s
    3. Optimizing exposure with Levels
      5m 1s
    4. Optimizing exposure using Curves
      7m 24s
    5. Removing color casts
      3m 3s
    6. Reducing chromatic aberrations
      4m 51s
  10. 25m 41s
    1. Understanding layers
      4m 21s
    2. Working with adjustment layers
      1m 35s
    3. Using layers to compare histological localization
      4m 41s
    4. Optimizing a fluorescent image
      4m 27s
    5. Creating a false-color image
      4m 25s
    6. Working with Smart Objects
      4m 13s
    7. Using selective desaturation
      1m 59s
  11. 1h 0m
    1. Understanding the Analysis menu
      3m 4s
    2. Creating a calibration
      3m 56s
    3. Selecting data points
      3m 0s
    4. Using the Marquee Selection tool to isolate an area of interest
      4m 18s
    5. Tracing a selection using the Lasso tool
      3m 31s
    6. Using the Polygonal Lasso tool
      6m 47s
    7. Using the Magnetic Lasso to create an area of interest
      4m 1s
    8. Working with the Quick Select tool
      4m 11s
    9. Using the Magic Wand
      4m 11s
    10. Creating a noncontiguous selection using the Magic Wand
      1m 54s
    11. Creating a selection using Color Range
      4m 32s
    12. Using the Selection tools for visual dissection
      2m 29s
    13. Using the Count tool
      5m 59s
    14. Using the ruler tool with calibration
      4m 28s
    15. Extracting data from the Measurement Log
      3m 41s
  12. 26m 31s
    1. Adding Scale bars manually
      4m 18s
    2. Adding Scale bars automatically
      5m 20s
    3. Adding text to images
      4m 50s
    4. Adding arrows to images
      6m 29s
    5. Adding vector shapes to images
      2m 57s
    6. Adding borders to images
      2m 37s
  13. 32m 29s
    1. Creating contact sheets
      4m 8s
    2. Combining images for presentation
      9m 35s
    3. Using the Bridge Slide Show feature
      2m 58s
    4. Creating a representative grayscale image
      6m 29s
    5. Using the Print interface
      2m 47s
    6. Integrating images into Microsoft Office files
      6m 32s
  14. 15m 23s
    1. Optimizing a DICOM image
      3m 49s
    2. Creating a DICOM animation
      7m 2s
    3. Annotating and optimizing animation
      4m 32s
  15. 1m 0s
    1. Goodbye
      1m 0s

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Watch the Online Video Course Photoshop CS3 Extended for BioMedical Research
5h 37m Intermediate Jan 25, 2008

Viewers: in countries Watching now:

Veteran pharmaceutical research scientist and member of Adobe's Biomedical Image Advisory Group, Eric J. Wexler shares his experience creating detailed biomedical imaging in Photoshop CS3 Extended for Biomedical Research. Eric shows how to use Photoshop CS3's selection, analysis, and editing tools to evaluate an image's color composition, modify images for research, optimize exposure with levels and curves, transform images with layers, and compensate for acquisition problems and limitations. Eric also explains how to add reference information to images, annotate and optimize DICOM animations, and share finished images with colleagues. Exercise files accompany the tutorials.

NOTE: Actual biological research images are used for this title's examples. Some of these images, including those of internal organs and dissected animals, may be considered graphic or offensive to some viewers. Viewer discretion is strongly advised.

Topics include:
  • Understanding imaging in biomedical research
  • Getting started in Photoshop
  • Organizing digital assets
  • Working with image stacks
  • Evaluating image color and histograms
  • Modifying images for research
  • Compensating for acquisition problems and limitations
  • Adding reference information to images
  • Sharing work
  • Optimizing and creating a DICOM image or animation
Subject:
Photography
Software:
Photoshop
Author:
Eric Wexler

Creating a selection using Color Range

In this movie, we are going to use the Color Range command to collect information about the colonies. If you are following along with me, open up Colony Count in the Chapter 10 Exercise folder. Now we see groupings of colonies and we are going to use the Color Range tool to create the selection just of the colonies. So we go up to Select, pull down Color Range, and this opens up a different way to create a selection. We can change the Preview to None so we are able to actually see the picture that we are going to want to identify a certain type of color for Photoshop to trace around. In this case, we are going to be looking at the white colonies. And we have Fuzziness, which is basically how large a range around what area we identify will the selection be created. So we will drop this down to about 50, which is a good place to start. And now we bring our cursor over, click in the middle of the colony, and we can see in our Preview box that we have selected the multiple colonies. And we can also change the Selection Preview to look at it under Grayscale, or a Black or White Matte if that would optimize our viewing, or a Quick Mask. And this way we can see that we really have identified and selected the white colonies.

So with them being selected, we can hit OK. And now we see how a selection border has been created within the colonies. This is where we can use the Refine Edge to grow the selection so we can encompass more of the actual colony area. We will need to click on a double selection tool so we have access to the Refine Edge. I clicked on Magic Wand in this case. I can click on Refine Edge. And now what I will do is I will expand. I can change the View mode and I can also increase the Feather. In this case, we can see the edges do have some feathering to them. And then now we have a proper selection for most of the colonies. We can expand this just a little bit more. Now we have adjusted the Refine Edge and we see that we are still missing a little bit of the area. We are going to close this out but keep these settings, hit OK, and then we will use the actual Magic Wand tool to add additional area.

We are going to decrease the Tolerance to about 20, make sure that Contiguous, in this case, is checked On because we don't want to expand all the selection borders just for three of these colonies. So I hit Contiguous. I am going to add to the selections by using the Quick Selection tool. I will move it over. I will decrease the size of the brush by using the left square bracket. Hold down my Shift key, okay, then click to add that colony completely and totally. And I will do that again with the colony here on the right border; hold down my Shift and add. And then I will have to adjust my cursor a little further, decreasing its size by using the left square bracket and I hold the Shift key down, click, hold the Shift key down, click.

Now I am very happy with the selection of all the colonies. And I can hit Record Measurements. And this will give me a total number of Count of the colony clumps. At the same time, we will see the total Area of each of the individual colony groupings. If you want to keep a record of this, we can add a Stroke to the selection. And that's the proper way to keep a record of where our selection border lies. Go to Edit > Stroke, we keep our Width of 2 pixels. In this case, the Color would be white so we want to change the color to something that has a high contrast, to that's red and white. We could select on the green area here but if we wanted a pure green, we can decrease the red to 0, decrease the blue to 0. And now we have a pure green. If we increase this to 255, we can hit OK. And then the Blending Mode, we will keep as Normal. And the Opacity, we can drop to 50% so we are able to see the border underneath the line we are going to draw. And I am going to leave the Location as Center so the selection line will be kept in the middle of the line we draw, instead of stroking the line on the inside of the selection border or outside of the selection border. Now we hit OK. And we can deselect by Command or Ctrl+D on the PC. And now we have created a border around the region of interest that we have measured.

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