Posted by
Ganesh Narayanasamy-2 on
Mar 18, 2010; 3:28pm
URL: http://imagej.273.s1.nabble.com/CT-images-negative-intensity-values-Stack-tp3688909.html
Here is a newbie to ImageJ. I have a stack of 2D CT 16-bit images in DICOM format that I am interested in saving in tiff or jpeg format with out the negative intensity pixel values. In order to preserve the image intensity range, Can I just add 1024 to the Hounsfield unit of all the pixels and make the intensities positive?
2nd Query: Since it is time consuming to open each image and saving it individually, I would like to import sequence and save as a single stack of 3D tiff or jpeg image.
When I opened the stack of 2D-CT images in DICOM format using File>Import>ImageSequence, the file stack opened in an incorrect order. Here are the file names (and the order in which it got opened in ImageSequence within brackets). Notice that file name includes longitudinal position information like 137mm, 139.5mm etc.
CT.rtp1.1.CHESTCT.T.137.CT.dcm (5)
CT.rtp1.1.CHESTCT.T.139.5.CT.dcm (1)
CT.rtp1.1.CHESTCT.T.142.CT.dcm (3)
CT.rtp1.1.CHESTCT.T.144.5.CT.dcm (6)
CT.rtp1.1.CHESTCT.T.147.CT.dcm (4)
CT.rtp1.1.CHESTCT.T.149.5.CT.dcm (2)
I would like to open the images in the sequence given above but don't know how to. So, I tried these steps but
in vain.
a) Removed the dots in filename, b) Replaced dots with "_" , c) Appended a number to the end of the filename
like CTrtp11CHESTCTT137CT_1.dcm, CTrtp11CHESTCTT1395CT_2.dcm etc but that did not help either.
I tried playing around with options in the Image sequence pop-up menu like Starting Image:1, Increment:1; Sort
Images Numerically etc, that did not work either.Hope someone can clarify. Thank you,
Ganesh
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"What the mind of man can conceive and believe, It can achieve" - Napolean Hill
-Ganesh
Narayanasamy,Ph.D., PostDoc-University of Kentucky Cancer Center
Earlier work:
http://www.sciencedaily.com/releases/2007/05/070504133017.htm************************************************************************
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