neuroscience | 易学教程

In NEURON .MOD files what is the order of operations of the sections?

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问题 In what order do the commands in NEURON .MOD/NMODL file sections get executed? Specifically, within these blocks: DERIVATIVE, BREAKPOINT and NET_RECEIVE. 回答1: For every time-step, the order of execution is as follows: NET_RECEIVE : If there is net_send() an event that targets this mechanism, lines here are executed first. Skipped otherwise. Lines in BREAKPOINT : The SOLVE ... METHOD line is ignored. All lines after SOLVE are executed. With a printf() statement, you would see two calls.

How to get a random observation point at a specific time over multiple trials in R?

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问题 I am working on Spike Trains and my code to get a spike train like this: for 20 trials is written below. The image is representational for 5 trials. fr = 100 dt = 1/1000 #dt in milisecond duration = 2 #no of duration in s nBins = 2000 #10msSpikeTrain nTrials = 20 #NumberOfSimulations MyPoissonSpikeTrain = function(p, fr= 100) { p = runif(nBins) q = ifelse(p < fr*dt, 1, 0) return(q) } set.seed(1) SpikeMat <- t(replicate(nTrials, MyPoissonSpikeTrain())) plot(x=-1,y=-1, xlab="time (s)", ylab=

Install libjpeg v8 to /opt/local

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问题 How do I install libjpeg 8 to /opt/local on OSX? The reason I am asking is that I would like to create small movies of brain activity using the MNE-C libraries. I executed 'mne_make_movie' which results in the following error: Movie production selected (from data)... Scanning /Users/user/mne/MNE-2.7.4-3420-MacOSX-x86_64/lib for plugins Found lqt_mjpeg.so...Getting codec info from module Trying to load /Users/user/mne/MNE-2.7.4-3420-MacOSX-x86_64/lib/lqt_mjpeg.so... dlopen failed for /Users

Brain modelling

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问题 Just wondering, since we've reached 1 teraflop per PC, yet we are still not able to model an insect's brain. Has anyone seen a decent implementation of a self-learning, self-developing neural network? 回答1: I saw an interesting experiment mapping the physical neural layout of a rat's brain to a digital neural network with weighting modelled on the neuron chemistry of each component taken using MRI and others. Quite interesting. (new scientist or Focus, 2 issues ago?) IBM Blue Brain comes to

neuroscience 神经元的相互作用

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从单个的神经到网络和认知，这是怎样一个过程？我们在做决定的时候我们脑子里发生了什么？是什么刺激了neuron让它发送电位信号？剑桥有本很好的书，全面的讲解了计算机神经科学和理论神经科学，而且是免费的，正好和我的感兴趣的领域高度符合。书名叫 Neuronal Dynamics 可以翻译成神经云动力学，dynamics有相互作用的意思，所以我觉得叫做“神经元的相互作用方式”更接地气 Neurons and Mathematics 神经元和数学的基础概念介绍如果不事先弄懂neuroscience的一些基础概念，比如action potentials(动作电位 ), postsynaptic potentials(突触后电位), firing thresholds(触发阈值)，到后了面写代码的时候就会一脸懵逼，还得跑回来重头学概念。希望五一节假期能够写完文章来源: https://blog.csdn.net/sinat_24070543/article/details/89735664

topoplot in ggplot2 – 2D visualisation of e.g. EEG data

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问题 Can ggplot2 be used to produce a so-called topoplot (often used in neuroscience)? Sample data: label x y signal 1 R3 0.64924459 0.91228430 2.0261520 2 R4 0.78789621 0.78234410 1.7880972 3 R5 0.93169511 0.72980685 0.9170998 4 R6 0.48406513 0.82383895 3.1933129 Full sample data. Rows represent individual electrodes. Columns x and y represent the projection into 2D space and the column signal is essentially the z-axis representing voltage measured at a given electrode. stat_contour doesn't work,

topoplot in ggplot2 – 2D visualisation of e.g. EEG data

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Can ggplot2 be used to produce a so-called topoplot (often used in neuroscience)? Sample data: label x y signal 1 R3 0.64924459 0.91228430 2.0261520 2 R4 0.78789621 0.78234410 1.7880972 3 R5 0.93169511 0.72980685 0.9170998 4 R6 0.48406513 0.82383895 3.1933129 Full sample data. Rows represent individual electrodes. Columns x and y represent the projection into 2D space and the column signal is essentially the z-axis representing voltage measured at a given electrode. stat_contour doesn't work, apparently due to unequal grid. geom_density_2d only provides a density estimation of x and y . geom

Class with too many parameters: better design strategy?

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I am working with models of neurons. One class I am designing is a cell class which is a topological description of a neuron (several compartments connected together). It has many parameters but they are all relevant, for example: number of axon segments, apical bifibrications, somatic length, somatic diameter, apical length, branching randomness, branching length and so on and so on... there are about 15 parameters in total! I can set all these to some default value but my class looks crazy with several lines for parameters. This kind of thing must happen occasionally to other people too, is

Class with too many parameters: better design strategy?

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问题 I am working with models of neurons. One class I am designing is a cell class which is a topological description of a neuron (several compartments connected together). It has many parameters but they are all relevant, for example: number of axon segments, apical bifibrications, somatic length, somatic diameter, apical length, branching randomness, branching length and so on and so on... there are about 15 parameters in total! I can set all these to some default value but my class looks crazy