# JuliaMicroscopy org?
**URL:** https://discourse.julialang.org/t/juliamicroscopy-org/65952
**Category:** Community
**Created:** [August 6, 2021, 4:29pm UTC](https://discourse.julialang.org/t/juliamicroscopy-org/65952 "2021-08-06T16:29:55Z")
**Posts on this page:** 20
**Page:** 1
### Author:  [@BioTurboNick](https://discourse.julialang.org/u/BioTurboNick)
#### Post date: [August 6, 2021, 4:29pm UTC](https://discourse.julialang.org/t/juliamicroscopy-org/65952/1 "2021-08-06T16:29:55Z")
I was curious about possibly starting a JuliaMicroscopy org for microscopy-specific packages. I have some research code I’ve published, and MATLAB code I’m interested in porting to Julia. @nboyd also has a localization microscopy-related packages ([Interest in single molecule localization microscopy? - #2 by tim.holy](https://discourse.julialang.org/t/interest-in-single-molecule-localization-microscopy/48227/2)), and there’s a package for OME-TIFFs over here: [Package for working with OMETIFF files in Julia! - Announcements - Image.sc Forum](https://forum.image.sc/t/package-for-working-with-ometiff-files-in-julia/26750)
How does one do that?
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### Author:  [@tim.holy](https://discourse.julialang.org/u/tim.holy)
#### Post date: [August 6, 2021, 5:42pm UTC](https://discourse.julialang.org/t/juliamicroscopy-org/65952/2 "2021-08-06T17:42:57Z")
I _think_ that anyone can create an organization on GitHub; then you just add teams/contributors and packages. The hard part is the social one, getting folks to contribute their packages. But orgs have worked out pretty well in general, so I think it might be merited.
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### Author:  [@roflmaostc](https://discourse.julialang.org/u/roflmaostc)
#### Post date: [August 6, 2021, 9:32pm UTC](https://discourse.julialang.org/t/juliamicroscopy-org/65952/3 "2021-08-06T21:32:47Z")
Hey,
potentially @RainerHeintzmann is also interested.
We currently work on several packages like [DeconvOptim.jl](https://github.com/roflmaostc/DeconvOptim.jl), [FourierTools.jl](https://github.com/bionanoimaging/FourierTools.jl), [PSFs.jl](https://github.com/RainerHeintzmann/PSFs.jl), [View5D.jl](https://github.com/RainerHeintzmann/View5D.jl), etc which all more or less target microscopy.
I’m also going to start my PhD soon and plan to work (almost) exclusively with Julia.
So yeah, might make sense to found one and then we can start moving packages slowly?
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### Author:  [@RainerHeintzmann](https://discourse.julialang.org/u/RainerHeintzmann)
#### Post date: [August 7, 2021, 12:21pm UTC](https://discourse.julialang.org/t/juliamicroscopy-org/65952/4 "2021-08-07T12:21:37Z")
Sounds like a good idea. As Felix wrote, we are currently active creating a few tools for microscopy use in Julia. In addition to Felix’s list, PSFs.jl is also coming up. To collect useful packages under one heading seems good to me.
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### Author:  [@BioTurboNick](https://discourse.julialang.org/u/BioTurboNick)
#### Post date: [August 8, 2021, 3:27pm UTC](https://discourse.julialang.org/t/juliamicroscopy-org/65952/5 "2021-08-08T15:27:07Z")
It’s been created! [https://github.com/JuliaMicroscopy](https://github.com/JuliaMicroscopy)
I also sent invites.
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### Author:  [@mkitti](https://discourse.julialang.org/u/mkitti)
#### Post date: [August 24, 2021, 1:11pm UTC](https://discourse.julialang.org/t/juliamicroscopy-org/65952/6 "2021-08-24T13:11:21Z")
I’m in. Is this when we start thinking about a Julia themed logo?
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### Author:  [@nilshg](https://discourse.julialang.org/u/nilshg)
#### Post date: [August 24, 2021, 1:14pm UTC](https://discourse.julialang.org/t/juliamicroscopy-org/65952/7 "2021-08-24T13:14:32Z")
My vote for 
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### Author:  [@carstenbauer](https://discourse.julialang.org/u/carstenbauer)
#### Post date: [August 24, 2021, 2:21pm UTC](https://discourse.julialang.org/t/juliamicroscopy-org/65952/8 "2021-08-24T14:21:28Z")
@cormullion ☝ There is a new Julia org that needs a nice logo. I thought that designing a “Julia microscope” could be a nice challenge for you 😄
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### Author:  [@cormullion](https://discourse.julialang.org/u/cormullion)
#### Post date: [August 24, 2021, 2:37pm UTC](https://discourse.julialang.org/t/juliamicroscopy-org/65952/9 "2021-08-24T14:37:23Z")
🙂
Hmm I don’t think an old-timey microscope would be that easy - but if I remember rightly what looking through one was like, it’s kind of like this?
but this is probably “floppy disk icon means ‘save’” level of icongraphy 🤣
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### Author:  [@mkitti](https://discourse.julialang.org/u/mkitti)
#### Post date: [August 26, 2021, 11:19pm UTC](https://discourse.julialang.org/t/juliamicroscopy-org/65952/10 "2021-08-26T23:19:31Z")
My thought would be a series of lenses in the Julia colors:
> **[Infinity-Corrected Microscope Conjugate Field Planes](https://www.microscopyu.com/tutorials/infinitymicroscope)**
>
> The geometrical relationship between image planes in the optical microscope, which has been adapted to use infinity-corrected optics, is explored in this tutorial.
> **[Google Sites: Sign-in](https://accounts.google.com/v3/signin/identifier?continue=https%3A%2F%2Fsites.google.com%2Fsite%2Fsites%2Fsystem%2Ferrors%2FWebspaceNotFound%3Fpath%3D%2Fexperimentaloptics%2Finvestigations%2Flight-microscope&followup=https%3A%2F%2Fsites.google.com%2Fsite%2Fsites%2Fsystem%2Ferrors%2FWebspaceNotFound%3Fpath%3D%2Fexperimentaloptics%2Finvestigations%2Flight-microscope&ifkv=AYZoVhfRRybEFaBfCAiOD6-mmfCOKaAmam3aAWfwQ2svZYXVp_7UfNbfKRCPqGNWfQGWYGOViKJFsw&passive=1209600&service=jotspot&flowName=GlifWebSignIn&flowEntry=ServiceLogin&dsh=S-1593239032%3A1696005933630391&theme=glif)**
>
> Access Google Sites with a personal Google account or Google Workspace account (for business use).
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### Author:  [@cormullion](https://discourse.julialang.org/u/cormullion)
#### Post date: [August 27, 2021, 8:49am UTC](https://discourse.julialang.org/t/juliamicroscopy-org/65952/11 "2021-08-27T08:49:38Z")
A nice idea!
If you wanted more realistic-looking optics, perhaps Makie could do something, although for icons it’ s usually better to stay abstract…
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### Author:  [@roflmaostc](https://discourse.julialang.org/u/roflmaostc)
#### Post date: [August 27, 2021, 10:26am UTC](https://discourse.julialang.org/t/juliamicroscopy-org/65952/12 "2021-08-27T10:26:57Z")
It might be also worth to think about using the [JuliaOptics Org](https://github.com/JuliaOptics/) (which has been used it the past and has currently different ownership) instead of focusing too much on microscopy?
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### Author:  [@John\_Gibson](https://discourse.julialang.org/u/John_Gibson)
#### Post date: [August 27, 2021, 1:10pm UTC](https://discourse.julialang.org/t/juliamicroscopy-org/65952/13 "2021-08-27T13:10:23Z")
Nice! One bit of realism it’d be good to add, if possible, is the light rays bending at the surfaces of the lenses, rather than their centers.
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### Author:  [@BioTurboNick](https://discourse.julialang.org/u/BioTurboNick)
#### Post date: [August 27, 2021, 1:20pm UTC](https://discourse.julialang.org/t/juliamicroscopy-org/65952/14 "2021-08-27T13:20:15Z")
Could use a configuration of lenses more typical of microscope objectives, for example:
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### Author:  [@cormullion](https://discourse.julialang.org/u/cormullion)
#### Post date: [August 27, 2021, 1:32pm UTC](https://discourse.julialang.org/t/juliamicroscopy-org/65952/15 "2021-08-27T13:32:27Z")
> [@John\_Gibson](#):
>
> One bit of realism it’d be good to add, if possible, is the light rays bending at the surfaces of the lenses, rather than their centers.
Well you learn something every day, 🙂 Wouldn’t be too difficult.
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### Author:  [@John\_Gibson](https://discourse.julialang.org/u/John_Gibson)
#### Post date: [August 27, 2021, 11:38pm UTC](https://discourse.julialang.org/t/juliamicroscopy-org/65952/16 "2021-08-27T23:38:35Z")
I hear you. 🙂 Maybe this is getting into the weeds, but I think the green lens should be concave, in order to turn converging rays into parallel, kind of an inversion of the first, purple, lens. Probably best to run it by an optics exert to make sure it all makes sense.
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### Author:  [@Eben60](https://discourse.julialang.org/u/Eben60)
#### Post date: [August 28, 2021, 11:29am UTC](https://discourse.julialang.org/t/juliamicroscopy-org/65952/17 "2021-08-28T11:29:11Z")
As usually there is a conflict between being technically precise and having an expressive graphical design. Real compound lens are never symmetric, I beleive (I’m not an optics expert), and nowadays pretty complex (see the post by [BioTurboNick](https://discourse.julialang.org/u/BioTurboNick) above), whereas the logo should preferably be simple enough and somehow symmetric (I’m even less a graphics expert).
Maybe something like this? That wouldn’t be completely physically wrong, and simple enough. Note different curvature of the inner interfaces vs. outer surfaces.
A “real world” note - in lens design, interfaces glas/air are to be avoided as much as possible due to light reflection from the interface.
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### Author:  [@Eben60](https://discourse.julialang.org/u/Eben60)
#### Post date: [August 28, 2021, 12:09pm UTC](https://discourse.julialang.org/t/juliamicroscopy-org/65952/18 "2021-08-28T12:09:47Z")
googling for “compound lens” images brought about less than I hoped for, but here you may find some ideas:
[X Line Objectives Offer Revolutionary Optical Performance Thanks to Advanced Manufacturing Technology | Olympus LS](https://www.olympus-lifescience.com/de/resources/white-papers/xline_high-performance_objectives/) (Fig. 5-6, 5-7)
> **[Definition of telephoto lens](https://www.photonics.com/EDU/telephoto_lens/d7430)**
>
> Define telephoto lens: A compound lens so constructed that its overall length is equal to or less than its effective focal length.
[https://www.photokonnexion.com/optical-lens-definition/](https://www.photokonnexion.com/optical-lens-definition/) ( Compound optical lenses)
[Definitions of Photography Terms](https://www.apotelyt.com/photo-terms/imaging-glossary) (APO)
> **[lens](https://kids.britannica.com/students/article/lens/275432)**
>
> For thousands of years humans could observe only the things that could be seen with unaided eyes. Today millions of people use lenses as eyeglasses and contact lenses to…
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### Author:  [@SergeantMike67](https://discourse.julialang.org/u/SergeantMike67)
#### Post date: [August 28, 2021, 1:45pm UTC](https://discourse.julialang.org/t/juliamicroscopy-org/65952/19 "2021-08-28T13:45:15Z")
I’m in if only to represent the entomology crowd. I have some measurement projects that could really use Julia’s help
Personally like the logo by @cormullion but what happened to the blue dot over the “J” in Julia?
Now where did I leave that net…
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### Author:  [@drhouse82](https://discourse.julialang.org/u/drhouse82)
#### Post date: [August 28, 2021, 2:53pm UTC](https://discourse.julialang.org/t/juliamicroscopy-org/65952/20 "2021-08-28T14:53:56Z")
I’m looking forward to PSFs.jl! Actually I have a (non-polished) PSF calculator in Julia as well… Looking forward to comparing and maybe contributing.
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