Equalize Histogram on whole volume not working
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Equalize Histogram on whole volume not working
 
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I was using Enhance Contrast with equalization based on the volume histogram of the entire stack to enhance PSF volumes collected on the confocal and then resample in Z and I noticed that the images looked much noisier with brighter backgrounds above and below the brightest parts of the cones. So I made a stack of ramp images and put white spots over different parts of the grayscale in each slice and tried the Enhance Contrast with equalization based on the volume histogram on this. Each slice was adjusted based on its own histogram, not the histogram of the entire volume. Both 8 and 16 bits in versions 1.46e and 1.46f 64 bit Java 1.6.0_12 on Windows7.
________________________________________________________ Michael Cammer, Assistant Research Scientist Skirball Institute of Biomolecular Medicine Lab: (212) 263-3208 Cell: (914) 309-3270 </PRE> <html> <body> ------------------------------------------------------------<br /> This email message, including any attachments, is for the sole use of the intended recipient(s) and may contain information that is proprietary, confidential, and exempt from disclosure under applicable law. Any unauthorized review, use, disclosure, or distribution is prohibited. If you have received this email in error please notify the sender by return email and delete the original message. Please note, the recipient should check this email and any attachments for the presence of viruses. The organization accepts no liability for any damage caused by any virus transmitted by this email.<br /> ================================= </body> </html> <PRE> |
Re: Equalize Histogram on whole volume not working
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Dear Imagers,
I was wondering whether anybody else has checked whether the "Use Stack Histogram" checkbox in the "Enhance Contrast" function as described at http://rsbweb.nih.gov/ij/docs/guide/userguide-26.html sec 26.5 is working correctly. We'd very much like to know if this is broken or whether we've been doing something wrong and should be doing the equalization of entire stacks some other way. Regards, Michael ________________________________________________________ Michael Cammer, Assistant Research Scientist Skirball Institute of Biomolecular Medicine Lab: (212) 263-3208 Cell: (914) 309-3270 -----Original Message----- From: ImageJ Interest Group [mailto:[hidden email]] On Behalf Of Cammer, Michael Sent: Tuesday, February 07, 2012 2:46 PM To: [hidden email] Subject: Equalize Histogram on whole volume not working I was using Enhance Contrast with equalization based on the volume histogram of the entire stack to enhance PSF volumes collected on the confocal and then resample in Z and I noticed that the images looked much noisier with brighter backgrounds above and below the brightest parts of the cones. So I made a stack of ramp images and put white spots over different parts of the grayscale in each slice and tried the Enhance Contrast with equalization based on the volume histogram on this. Each slice was adjusted based on its own histogram, not the histogram of the entire volume. Both 8 and 16 bits in versions 1.46e and 1.46f 64 bit Java 1.6.0_12 on Windows7. ________________________________________________________ Michael Cammer, Assistant Research Scientist Skirball Institute of Biomolecular Medicine Lab: (212) 263-3208 Cell: (914) 309-3270 </PRE> <html> <body> ------------------------------------------------------------<br /> This email message, including any attachments, is for the sole use of the intended recipient(s) and may contain information that is proprietary, confidential, and exempt from disclosure under applicable law. Any unauthorized review, use, disclosure, or distribution is prohibited. If you have received this email in error please notify the sender by return email and delete the original message. Please note, the recipient should check this email and any attachments for the presence of viruses. The organization accepts no liability for any damage caused by any virus transmitted by this email.<br /> ================================= </body> </html> <PRE> ------------------------------------------------------------ This email message, including any attachments, is for the sole use of the intended recipient(s) and may contain information that is proprietary, confidential, and exempt from disclosure under applicable law. Any unauthorized review, use, disclosure, or distribution is prohibited. If you have received this email in error please notify the sender by return email and delete the original message. Please note, the recipient should check this email and any attachments for the presence of viruses. The organization accepts no liability for any damage caused by any virus transmitted by this email. ================================= |
Re: Equalize Histogram on whole volume not working
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In reply to this post by Cammer, Michael
On Feb 7, 2012, at 2:45 PM, Cammer, Michael wrote:
> I was using Enhance Contrast with equalization based on the volume histogram of the entire stack to enhance PSF volumes collected on the confocal and then resample in Z and I noticed that the images looked much noisier with brighter backgrounds above and below the brightest parts of the cones. So I made a stack of ramp images and put white spots over different parts of the grayscale in each slice and tried the Enhance Contrast with equalization based on the volume histogram on this. Each slice was adjusted based on its own histogram, not the histogram of the entire volume. Both 8 and 16 bits in versions 1.46e and 1.46f 64 bit Java 1.6.0_12 on Windows7. This bug is fixed in the ImageJ 1.46g daily build. -wayne |
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