Happy to be included in list of people doing neuroscience using Julia?

[alexmorley]

Hi everyone! I put together a simple website to point people in the direction of cool packages that are using Julia for Neuroscience. As part of this I created a list of people who I know are involved already. Just tagging here to:
a) check your OK with having your handle mentioned here. Put a thumbs down here or fire me an email at alex0morley@gmail.com if you want yours to be removed (I can remove from earlier commits too - realised I probably should have done this before, my bad).
b) check if anyone wants to get involved or has any thoughts about the potential gains (or losses) to be had from a JuliaNeuro community. I wrote down some ideas here (ROADMAP).

@simonster
@paulmthompson
@ahwillia
@timholy
@codles
@galenlynch  
@jmxpearson
@seung-lab

[rob-luke]

Hi Alex,
Nice work collecting all these packages. Thanks for including EEG.jl.
I'm not working on EEG as much as I was, but I'll probably update it again after Julia 1.0

[jmxpearson]

Same here. Might be interesting for those of us going to SfN to meet up and discuss strategy for promoting Julia to the neuro community once 1.0 hits. Would be great to have a set of "recommended" packages that are well-maintained and seamless to install.

[alexmorley]

@jmxpearson That sounds like a good idea. This'll be my first SFN - is there a good time/place that would be convenient for people? maybe a lunch-time as people are likely to have that free?

[jmxpearson]

If I recall correctly, lunch anywhere near the convention center in DC is tricky. Dinner or drinks might be easier. Perhaps we should take this to email? People who are interested can post here to be kept in the loop?

[sje30]

add me for sure. (Not at SFN tho.)

[alexmorley]

@sheljohn happy to be added?

[galenlynch]

Happy to be added as well!

[sheljohn]

@alexmorley Sorry for the late reply, yes!

[rob-luke]

@alexmorley what was the outcome of the SFN discussion? Will this JuliaNeuro group go ahead? I am looking to split out some file type IO stuff in to a separate package and this might be a nice home for it.

[alexmorley]

I think so. Basically the key outcome was that it's important to show people getting started what/where the well-maintained packages are that will be useful for neuro. So ideally this would consist of:
a) list of which packages to use for common problems, e.g. DSP.jl for signal processing etc.
b) providing a home for stable, neuro-specific packages that people can be confident using.

[rob-luke]

Great.

Regarding reading neuro related file types (for example recordings from different machine types like EEG, MEG, etc) do we want a generic package for this? Or a package per file type?
Something general like NeuroIO.jl or something specific per file type like NIRIO.jl for reading .nir files?

[alexmorley]

moved to #10

[DominiqueMakowski]

Hey guys, I will be slowly getting back at Julia in the next months and I would be interested by joining this neuroscience community.

I have some experience with python in biosignals / EEG processing so I hope I'll be of use 😸

[alexmorley]

Hey! Let us know what you get up to :) in the mean time if you want to make a PR to the webpage to add yourself to the list of people that'd be cool :)

…

On Mon, 13 Aug 2018, 10:01 Dominique Makowski, ***@***.***> wrote: Hey guys, I will be slowly getting back at Julia in the next months and I would be interested by joining this neuroscience community. I have some experience with python in biosignals / EEG processing so I hope I'll be of use 😸 — You are receiving this because you were mentioned. Reply to this email directly, view it on GitHub <#1 (comment)>, or mute the thread <https://github.com/notifications/unsubscribe-auth/ANBd4YUhdjX0DIzTyqmBeciQNBriqxYWks5uQUBsgaJpZM4O0w9l> .

[potaslab]

Hi everyone! I put together a simple website to point people in the direction of cool packages that are using Julia for Neuroscience. As part of this I created a list of people who I know are involved already. Just tagging here to:
a) check your OK with having your handle mentioned here. Put a thumbs down here or fire me an email at alex0morley@gmail.com if you want yours to be removed (I can remove from earlier commits too - realised I probably should have done this before, my bad).
b) check if anyone wants to get involved or has any thoughts about the potential gains (or losses) to be had from a JuliaNeuro community. I wrote down some ideas here (ROADMAP).

@simonster
@paulmthompson
@ahwillia
@timholy
@codles
@galenlynch
@jmxpearson
@seung-lab

Hi Alex, is there anything happening for SfN and Julia this year? I have implimented Julia in my laboratory and have my first round of hons students coding away. So far so good, although those array types do my head in a bit!

[alexmorley]

I'm not going to be there this year, but maybe others will be keen? Might be worth posting on the Julia Discourse or twitter!

[timholy]

I'll be at SfN

[jmxpearson]

I'll also be there. @HawkWings has a poster with some nice streaming analysis done using Julia (in conversation with Python).

[galenlynch]

I'll be there

[potaslab]

I'll also be there. @HawkWings has a poster with some nice streaming analysis done using Julia (in conversation with Python).

I'd be keen to have a look at your poster. Flick me the details.

I'll be giving a talk where we extracted signals from an Intan data files, performed our signal processing and data analysis:

Session Type: Nanosymposium
Session Number: 722
Session Title: Cortical and Subcortical Planning and Execution
Session Date and Time: 10/23/2019 1:00:00 PM - 10/23/2019 3:45:00 PM
Location/Room: McCormick Place: Room N227
Presentation Time: 10/23/2019 1:15:00 PM - 10/23/2019 1:30:00 PM
Presentation Number: 722.02
Title: What can the rat dorsal column nuclei tell us about the limits of human tactile perception?

[jmxpearson]

@jpotas: Neat!

Our poster:
432.21. Adaptive platform for online characterization of neural data
*A. DRAELOS1, M. NIKITCHENKO2, E. E. THOMSON2, E. PNEVMATIKAKIS3, A. GIOVANNUCCI4, E. A. NAUMANN2, J. M. PEARSON1,2;
1Biostatistics & Bioinformatics, 2Neurobio., Duke Univ., Durham, NC; 3Ctr. for Computat. Biol., Flatiron Institute, Simons Fndn., New York, NY; 4UNC/NCSU Joint Dept. of Biomed. Engin., Univ. of North Carolina, Chapel Hill, NC

Session: Poster: 432 - Software Tools: Analysis II

[Marco-Congedo]

Hello All,

I am working with EEG since almost 20 years now. I moved to Julia last year and i am currently creating basic packages for working with EEG data in Julia.
For the moment being i wrote a package for the Fourier Analysis in the frequency and time-frequency domain, and two packages for manipulating and classifying positive definite matrices (Riemannian geometry framework). Those packages are documented in great details and are tailored for EEG, so they may be included in the list of available resources. I am also definitely interested in building a Julia community around EEG analysis, so please @alexmorley add me to the list of interetsed people. Marco Congedo. Thanks.

[behinger]

hi!
I wrote a package for time series regression (linear & mixed models) for EEG / fMRI (https://github.com/unfoldtoolbox/unfold.jl/).
Other words for the same analysis: mass univariate linear model, multiple regression, deconvolution, overlap-corrected linear models, basis-function modelling, GAM, spline regression etc.

The julianeuro site is still googleable so I'd thought it would be helpful to add this package to the list :)
Cheers!