EEGNET：开源的可视化分析脑网络工具

文章连接

名称：EEGNET: An Open Source Tool for Analyzing and Visualizing M/EEG Connectome

写在前面的话2

确实不大好用，出bug比较频繁，我会上传一些其他代码的安装包，不过最好还是自己改，吃透会好一些，看需要吧。

写在前面的话

翻译水平有限，所以附上原文可以及时对照。我已经把不太确定和可能有问题的标注了，如有错误请多多批评指正，感谢♪(･ω･)ﾉ

翻译这东西吧，不是说看不懂，但这么长的文章真的看着太痛苦了，而且个人翻译还要打字，更慢。事实证明真的机器翻译大行其道不是没有原因的。

安装

将安装包解压，添加到路径之下即可

数据

This file represents either the scalp EEG data or the reconstructed sources. The default file format is the ‘.mat’.

可以使用溯源或者直接的头皮脑电数据。数据格式为‘mat’

It should be a 3 dimensional matrix (Nc x Ns x Nt) where Nc, Ns and Nt are the channels (brain regions in the case of sources file) number, the sample size and the number of trials (Nt is considered 1 for data averaged over trials)

矩阵必须是三维的：(Nc × Ns × Nt) Nc是采集通道，Ns是一个trail的长度（也可能是被试人员，待测试），Nt是被试次数，对于在trail上做了平均的，Nt=1

respectively. When solving the inverse problem and for visualizing the network at scalp level, the electrode location file is required. In the current EEGNET version, both the.xyx and mat formats are supported.

注意，当求解溯源时和可视化头皮信号网络，需要电极位置的信息。在最新版本，xyz坐标文件（EEGlab打好标记可以生产）和mat文件（？）都可以。

Some basic preprocessing features are available in the current version of EEGNET. The imported data can be firstly visualized. These signals can be then filtered using a Finite Impulse Response (FIR) linear filter before computing the function connectivity (FC) matrices.

EEGNET可以做一些基础的预处理工作。加载的信号可以被显示出来.这些数据可以先进行FIR滤波，再计算功能连接（FC）矩阵。

This feature allows users to choose the frequency band where to compute the FC. The data can also resampled by changing the sampling frequency. This feature can be essential in some cases where users attempt to reduce the size of the data.

我们可以选择频带去计算FC，数据也可以改变采样频率重采样。在某些我们想要去减少数据大小的时候，这种方法就很重要

The preprocessing tool allows user also to specify the baseline from the visualized data. This baseline is essential for computing/normalizing the post vs. pre stimulus connectivity for instance or to compute the noise covariance matrix when solving the inverse problem.

这些预处理工具允许我们校正基线。对于像是计算和归一化刺激前连通性矩阵或者在解决求逆问题时计算噪声干扰相关矩阵，校正基线就显得十分重要。

EEGNET provides also the possibility of computing the time-frequency representation of the data. In the current version, the complex Morlet wavelet is used as it was shown to provide a good compromise between time and frequency resolution [40–42]. This time frequency maps can be shown trial by trial in the case of multi-trial data.

EEGNET也提供计算时频表示数据的功能。当前版本，支持复morlet小波变换，其作为时频解决方案具有良好的效果。在有多个trail的情况下，时频图将挨个显示

连接矩阵（The adjacency matrix）

This file is an Nc × Nc dimension. It contains the values of the functional connections between all the channels (or brain regions).

这个文件是Nc×Nc维度的矩阵。他包含着所有通道（脑区）之间的功能连接的值。

This file can be also in Ns × Nc × Nc in the case where it is the dynamics of functional networks that is being analyzed.

该文件也可以是Ns×Nc×Nc，如果需要进行功能网络的动态分析。

To compute the functional connectivity (FC) matrices, four methods are available: the cross-correlation, the mean phase coherence (MPC), the mutual information (MI) and the Phase Locking Value (PLV), see [43] for review.

计算功能连接矩阵有四种方法：互相关，平均相位相关，互信息，锁相值，以及其他方法[43]

After choosing the desired method, the connectivity values can be computed over scalp signals (generating 2D networks) or over the time series associated with the reconstructed sources (generating 3D networks at cortex level).

注意，头皮脑电只能计算2D，溯源可以计算3D

In the typical example presented in this paper, the Phase Locking Value (PLV) was computed between scalp electrodes as well as between sources. The PLV is a part of the method from PS family.

在论文中使用的是锁相（PLV）的方法，在头皮信号和溯源信号中都计算了一遍。PLV是PS方法的一种（一共有四种，幅值相位两两互锁）。

It was initially proposed by Lachaux et al. [44] and its main advantage is the possibility of computing FC matrix at each instant as the method look at the inter-trial information [2].

这种方法最开始提出于Lachaux 等人的文章中，并且他最主要的优点就是能够计算每个时刻的FCM，因为这种方法可以关注到 inter-trail（？）的信息

To assess the significance of the obtained connections, surrogates data analysis can be used and a level of significance can be set which allow users to keep only the statistically significant connections (see [2] for details about this approach).

为了获取得到的连接矩阵中的意义/内涵，应当使用代替数据分析法并设置一个有效阈值来只保留那些我们认为具有统计学显著意义的连接。（更多细节见参考文献2）

To ensure the significance of the obtained FC matrices, we integrated a statistical test based on the surrogate data analysis. Briefly, we use multivariate Fourier transform surrogates generated from the original EEG data. Such surrogates correspond to realizations of linear stationary process with conserved auto-and cross-correlation characteristics.

为了保证FCM的显著性，我们加入了基于代替数据法的统计学检验。简单来说，我们在原始EEG数据上使用了多元傅里叶变换替代法。这些函数对应于具有保守自相关和互相关特性的线性平稳过程的实现。

The null hypothesis is tested by comparing the original connectivity value (Corg) and those obtained using the surrogate data (Csurr) using a statistical test. The “Rank test” is used to reject or accept the null hypothesis.

通过比较原始连通性值(COLG)和使用统计检验的代理数据(Csurr)获得的连通性值，来验证零假设。“等级检验”用于拒绝或接受零假设。

Basically, [Corg; Csurr] is sorted in increasing order and the rank index for Corg is returned. With a number of surrogates (nsurr = 100 for example), if this rank is > 95 and < 5 (significance level at 95%), this means that it lies in the tail of the distribution, and that the null hypothesis can be rejected (two-tailed test) with a significance of p = 2*(1/ (nsurr+1)) = 0.019. The output of this analysis is the matrix containing only the significant connections.

基本上，[Corg；Csurr]按递增顺序排序，并返回COG的rank index。举个例子，有100个surrogates，如果rank 大于95或者小于5（显著性等级为95），就意味着他处于分布的尾部，并且是可以拒绝的（双尾检验）零假设（p = 0.019）。这样就得到了一个具有统计意义的连接矩阵。

网络（The Network）

When realizing M/EEG source connectivity, the cortical surface file and its corresponding scout file are required. The surface file contains the cortical mesh and the scout file contains the labels of the brain regions in case of using specific atlas. The cortical parcellation provides the ROIs that are used as network no