saurabhgayali |
Pseudocoloring is a useful technique in scienmce to see biological data like localization of proteins, protein protein interaction and microscopy images. Pseudocoloring is possible in Photoshop bit its a multistep process and a bit tricky. Most of the times there are more than hundreds of samples to be processed in a day. I thought Filterforge could be useful. But I think most of the labs wont buy filterforge as that wont be sanctioned inside research grants (As filter forge is yet not known to have any additional value in research as Image J and Photoshop).
I created 3 filters for pseudocoloration. and i submitted in library but i am less likely to pass. I am submitting them here. As the filter uses external images, I created them with plain color and thus effects wont be similar to what we get. I feel it would be great if these 3 filters could make a freepack from filterforge admins as a gift to the science community. saurabh.gayali@gmail.com |
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Posted: July 18, 2012 5:40 pm | ||||||||||
saurabhgayali |
Not able to post 3 files as a zipped archive so posting individuals
saurabh.gayali@gmail.com |
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Posted: July 18, 2012 5:43 pm | ||||||||||
saurabhgayali | ||||||||||
Posted: July 18, 2012 5:44 pm | ||||||||||
saurabhgayali | ||||||||||
Posted: July 18, 2012 5:44 pm | ||||||||||
saurabhgayali | ||||||||||
Posted: July 18, 2012 5:45 pm | ||||||||||
saurabhgayali |
Question is should I merge all three in a single filter?
saurabh.gayali@gmail.com |
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Posted: July 18, 2012 5:46 pm | ||||||||||
saurabhgayali | ||||||||||
Posted: July 18, 2012 5:55 pm | ||||||||||
Morgantao
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I vote yes. You can use a switch component to let the user decide if he wants a B\G or a R\B or a R\G merge. |
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Posted: July 21, 2012 4:26 pm | ||||||||||
saurabhgayali |
Currently working for a version with all 3 possible modes.
Moreover I am looking for Assemble CMYK channels anyhow coz for color blind peopkle Green-Red and red-blue combi wont work effectively. saurabh.gayali@gmail.com |
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Posted: July 24, 2012 3:38 pm | ||||||||||
saurabhgayali |
Here is combined filter with all three modes. moreover it makes montage.
Filter named as Pseudocolor-montage Pseudocolor-montage.ffxml saurabh.gayali@gmail.com |
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Posted: July 24, 2012 3:42 pm | ||||||||||
saurabhgayali | ||||||||||
Posted: July 24, 2012 3:50 pm | ||||||||||
Morgantao
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I see in the montage that the lower right square is empty.
Why not put another merge instead? In the example above you have R/G on the left, you can have B/G on the right, for example. You can even use the switch to cycle between R/G+R/B, R/B+G/B or R/G+G/B. |
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Posted: July 24, 2012 4:00 pm | ||||||||||
saurabhgayali |
its a 2 channel mixer
that is either RG GB or RB when we dont use any channel we put a blank instead in scientific world the fourth quadrant will be filled in 3 channel mixer (advanced flourescene microscopy) and the fourth quadrant which is blank will contain the merged image, and the quadrant having merged image now will contain the third map ![]() Basic idea of this filter was to make publication ready image no montage needed after this and no photoshopping. so forth quadrant is blank as needed in scientific journals. saurabh.gayali@gmail.com |
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Posted: July 24, 2012 4:07 pm | ||||||||||
saurabhgayali |
I think this single filter can be launched a s a free-pack
And if you dont mind can have my username mentioned in the free-pack description. saurabh.gayali@gmail.com |
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Posted: July 24, 2012 4:08 pm | ||||||||||
Morgantao
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Oh, OK. As long as there's a reason for the blank quadrant
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I think you should also email this to someone, as I'm not sure it will be seen in the forum... |
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Posted: July 24, 2012 4:28 pm | ||||||||||
GMM
Moderator
Posts: 3491 |
Personally I'd rather give a Basic edition license to a lab that needs a filter of this kind, instead of spending resources to compile, test and publish such a niche freepack.
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Posted: July 25, 2012 4:40 am | ||||||||||
saurabhgayali |
I expected some courtsey in name of Science, when so many freepacks have been released from graphics designer
![]() saurabh.gayali@gmail.com |
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Posted: July 27, 2012 8:08 am | ||||||||||
uberzev
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There must be existing free tools that produce this effect.
If not you should learn to program. ![]() |
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Posted: July 27, 2012 8:14 am | ||||||||||
Skybase
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I think its awesome I hear somebody using FilterForge outside of artist terms.
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Posted: July 27, 2012 11:08 am | ||||||||||
saurabhgayali |
@ uberzev
image J n photoshop can do merging n montage in 2 step n its tricky. in FF its 1 step n simple. saurabh.gayali@gmail.com |
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Posted: July 27, 2012 5:53 pm | ||||||||||
Skybase
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Uber's saying there's probably a free program that already does this. He doesn't mean it in Photoshop.
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Posted: July 27, 2012 9:54 pm | ||||||||||
Carl
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Uglyboys isn't GMM suggesting they will give free basic edition to labs, isn't that better than free packs, where you can design more filters suitable for labs, or update the filters you've made, where in a free pack you couldn't ![]() |
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Posted: July 27, 2012 10:10 pm | ||||||||||
saurabhgayali |
1. basic edition dont give freedom to create new filters.
2. limitation of pixel range which is important in scientific world. 3. and most important, being a biologist I know, people dont understand and are not ready to do things in 2 steps (installing filter forge and then installing filter). saurabh.gayali@gmail.com |
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Posted: July 28, 2012 2:54 am | ||||||||||
uberzev
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uglyboys are you sure no existing tool exists for generating this result?
Take a look at the bottom of this Wiki page for a bunch of free programs... http://en.wikipedia.org/wiki/Microsco...processing |
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Posted: July 28, 2012 3:43 am | ||||||||||
Carl
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geez talk about looking a gift horse in the mouth
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neither does the free packs ![]()
what pixels ratio do they need?
come on, you mean bioligist are incapable of doing one more step than installing the free pack, with a simple click on download the filter, aren't you guys suppose to have some intellect.
why do you think your special? ........ GMM made a very generous offered, FF is a commercial business, as are biologist research groups [ a part from government backed research ] as you feel strongly would you pay for for the development of the free pack? |
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Posted: July 28, 2012 3:50 am | ||||||||||
Skybase
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Does it look like FilterForge markets their stuff towards scientists? Answer: no.
Yeah sure you can make cool science filters and put them in the library but why push for a free pack? I'm pretty darn sure there's also the issue of credibility of the program you use. My friends use matlab, mathematica, photoshop (and other tools) which have credibility for research purposes. The fact that a "freepack" was suggested already hurts credibility. Think about it, you're basically using a restrictive demo-like version of FilterForge that can't do anything but produce that filter effect. So are you going to put down "Image was processed using FilterForge free pack" on your paper? I hope not. So now what are we left with? Hobbyists? Even Hobbyists have their own programs they use. Look, I think I can give all the love and credit for making the filters. I respect you for that. Ok? But I don't respect people saying things like "I expected some courtesy in [the] name of Science" especially to pitch an idea. You're buying feelings with that phrase. That's wrong, especially when I see it under the name of science. Sure, there are people who say these things, but it's just not appropriate here. I love everybody ok? I don't like arguing and I hate to see forum posts burn. But I needed to say that and get it off my chest. I'm an artist, and I love science. And there are some things that get pushed too far and this was one of those times that things went in the wrong direction. If suggestions get bunked or rejected, don't ride over it. It just hurts yourself and I hate seeing people get hurt on forum commentary. ![]() |
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Posted: July 28, 2012 5:44 am | ||||||||||
Ghislaine
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Well said Skybase. I agree with you.
![]() visit https://gisoft.ca |
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Posted: July 28, 2012 10:17 am |
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