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saurabhgayali
Saurabh Gayali
Posts: 183
Filters: 84
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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saurabhgayali
Saurabh Gayali
Posts: 183
Filters: 84
Not able to post 3 files as a zipped archive so posting individuals
saurabh.gayali@gmail.com
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saurabhgayali
Saurabh Gayali
Posts: 183
Filters: 84
Blue Green

Flouresecnece Image Merger-Blue Green.ffxml
saurabh.gayali@gmail.com
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saurabhgayali
Saurabh Gayali
Posts: 183
Filters: 84
Red BLue

Flouresecnece Image Merger-Red Blue.ffxml
saurabh.gayali@gmail.com
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saurabhgayali
Saurabh Gayali
Posts: 183
Filters: 84
Red Green

Flouresecnece Image Merger-Red Green.ffxml
saurabh.gayali@gmail.com
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saurabhgayali
Saurabh Gayali
Posts: 183
Filters: 84
Question is should I merge all three in a single filter?
saurabh.gayali@gmail.com
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saurabhgayali
Saurabh Gayali
Posts: 183
Filters: 84
Working samples

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Morgantao
Can't script

Posts: 2185
Filters: 20
Quote
Question is should I merge all three in a single filter?


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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saurabhgayali
Saurabh Gayali
Posts: 183
Filters: 84
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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saurabhgayali
Saurabh Gayali
Posts: 183
Filters: 84
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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saurabhgayali
Saurabh Gayali
Posts: 183
Filters: 84
working example of pseudocolor montage.(downsampled)

If u feel it as good. and if it is accepted in library. plz re-download from library than here and use as i will get usage rank.

thank you




UGLYBOYS

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Morgantao
Can't script

Posts: 2185
Filters: 20
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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saurabhgayali
Saurabh Gayali
Posts: 183
Filters: 84
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 smile:)

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.
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saurabhgayali
Saurabh Gayali
Posts: 183
Filters: 84
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.
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Morgantao
Can't script

Posts: 2185
Filters: 20
Oh, OK. As long as there's a reason for the blank quadrant smile:)

Quote
I think this single filter can be launched a s a free-pack

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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GMM
Moderator
Filter Forge, Inc
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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saurabhgayali
Saurabh Gayali
Posts: 183
Filters: 84
I expected some courtsey in name of Science, when so many freepacks have been released from graphics designer smile:(
saurabh.gayali@gmail.com
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uberzev
not lyftzev

Posts: 1890
Filters: 36
There must be existing free tools that produce this effect.

If not you should learn to program. smile:D
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Skybase
2D/3D Generalist

Posts: 4025
Filters: 76
I think its awesome I hear somebody using FilterForge outside of artist terms. smile:) But the unfortunate side is that you're basically dealing with a software that bases itself with artists and not scientists. I mean least you have something in the library that somebody else can use if they have FilterForge.
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saurabhgayali
Saurabh Gayali
Posts: 183
Filters: 84
@ 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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Skybase
2D/3D Generalist

Posts: 4025
Filters: 76
Uber's saying there's probably a free program that already does this. He doesn't mean it in Photoshop.
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Carl
c r v a

Posts: 7289
Filters: 82
Quote
uglyboys wrote:
I expected some courtsey in name of Science
Quote
GMM wrote:
Personally I'd rather give a Basic edition license to a lab that needs a filter of this kind


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 smile:)
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saurabhgayali
Saurabh Gayali
Posts: 183
Filters: 84
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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uberzev
not lyftzev

Posts: 1890
Filters: 36
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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Carl
c r v a

Posts: 7289
Filters: 82
geez talk about looking a gift horse in the mouth smile:(
Quote
uglyboys wrote:
1. basic edition dont give freedom to create new filters.

neither does the free packs smile:!: and by your no.3 biologists won't understand making filters, it takes more than one step[
Quote
uglyboys wrote:
2. limitation of pixel range which is important in scientific world.

what pixels ratio do they need?
Quote
uglyboys wrote:
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).

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.
Quote
uglyboys wrote:
I expected some courtsey in name of Science

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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Skybase
2D/3D Generalist

Posts: 4025
Filters: 76
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. smile:|
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Ghislaine
Ghislaine

Posts: 3142
Filters: 270
Well said Skybase. I agree with you. smile:)
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