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workshop:jyvaskyla2017 [2018/10/21 15:20]
42.49.180.224 old revision restored (2017/06/14 11:27)
workshop:jyvaskyla2017 [2017/08/17 11:21] (current)
127.0.0.1 external edit
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 ===== How should you prepare for the workshop? ===== ===== How should you prepare for the workshop? =====
  
-&lt;note important&gt;+<note important>
 In this workshop we will have a steep learning curve. We will move from basic preprocessing to channel and source-level connectivity. Given the limited amount of time, it is **important** that you come well prepared. ​ In this workshop we will have a steep learning curve. We will move from basic preprocessing to channel and source-level connectivity. Given the limited amount of time, it is **important** that you come well prepared. ​
-&lt;/note&gt;+</note>
  
-If you are not familiar with MATLAB or are not certain about your MATLAB skills, please go through the &quot;MATLAB for psychologists&​quot; ​tutorial on http://​www.antoniahamilton.com/​matlab.html+If you are not familiar with MATLAB or are not certain about your MATLAB skills, please go through the "MATLAB for psychologists" ​tutorial on http://​www.antoniahamilton.com/​matlab.html
  
 Please read the [[http://​www.hindawi.com/​journals/​cin/​2011/​156869/​|FieldTrip reference paper]] to understand the toolbox design. ​ Please read the [[http://​www.hindawi.com/​journals/​cin/​2011/​156869/​|FieldTrip reference paper]] to understand the toolbox design. ​
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 For most of the hands-on session, we will create some simulated data to learn and understand about some basic connectivity measures. We will also process some real data, but will not spend too much time on understanding how MATLAB works and how FieldTrip organizes the data. Therefore if you have never done any FieldTrip analysis in MATLAB before, you should read this [[/​tutorial/​introduction|introduction tutorial]] and you should go through the [[/​tutorial/​eventrelatedaveraging|MEG preprocessing tutorial]]. Depending on your understanding of MATLAB and MEG, you can **simply read** the preprocessing tutorial (which will take you 30 minutes) or download the example data and **go through it step by step** (which will take you 2 hours). ​ For most of the hands-on session, we will create some simulated data to learn and understand about some basic connectivity measures. We will also process some real data, but will not spend too much time on understanding how MATLAB works and how FieldTrip organizes the data. Therefore if you have never done any FieldTrip analysis in MATLAB before, you should read this [[/​tutorial/​introduction|introduction tutorial]] and you should go through the [[/​tutorial/​eventrelatedaveraging|MEG preprocessing tutorial]]. Depending on your understanding of MATLAB and MEG, you can **simply read** the preprocessing tutorial (which will take you 30 minutes) or download the example data and **go through it step by step** (which will take you 2 hours). ​
  
-&lt;note important&gt;+<note important>
 So overall there is about 2 to 5 hours of preparation required from you prior to the workshop! ​ So overall there is about 2 to 5 hours of preparation required from you prior to the workshop! ​
-&lt;/note&gt;+</note>
  
 ===== Getting started with the hands-on sessions ===== ===== Getting started with the hands-on sessions =====
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 In order to get started, and ensure that all paths are set correctly, after you start up MATLAB, you need to navigate to C:​\MyTemp\MEGSummerschool\training_data\toolkit_jyvaskyla\,​ and type '​startup'​ on the command line. This command ensures that the MATLAB path is set correctly to include the necessary FieldTrip functions. In order to get started, and ensure that all paths are set correctly, after you start up MATLAB, you need to navigate to C:​\MyTemp\MEGSummerschool\training_data\toolkit_jyvaskyla\,​ and type '​startup'​ on the command line. This command ensures that the MATLAB path is set correctly to include the necessary FieldTrip functions.
  
-&lt;note warning&gt;+Next, the hands-on sessions are pretty self explanatory. The tutorials contain quite some text to read, providing background, and then some sections of MATLAB code, which you are to execute on the command line. The most efficient way to do this, is to copy-and-paste the sections of MATLAB code into a MATLAB-script (for novices: this is a text file that you can edit, and from which you can easily execute code). If you are unsure about how to do this, ask a knowledgeable colleague, or one of the tutors. 
 + 
 +<note warning>
 In general, please do NOT use the graphical path management tool from MATLAB. In this hands-on session we'll manage the path from the command line, but in general you are much better off using the startup.m file than the path GUI. In general, please do NOT use the graphical path management tool from MATLAB. In this hands-on session we'll manage the path from the command line, but in general you are much better off using the startup.m file than the path GUI.
  
 Furthermore,​ please do NOT add fieldtrip with all subdirectories,​ subdirectories will be added automatically when needed, and only when needed (see this [[/​faq/​should_i_add_fieldtrip_with_all_subdirectories_to_my_matlab_path|FAQ]]). Furthermore,​ please do NOT add fieldtrip with all subdirectories,​ subdirectories will be added automatically when needed, and only when needed (see this [[/​faq/​should_i_add_fieldtrip_with_all_subdirectories_to_my_matlab_path|FAQ]]).
-&lt;/note&gt;+</note>
  
   * morning   * morning
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   * afternoon   * afternoon
     * 1.5h handson [[/​tutorial/​networkanalysis|Networkanalysis]]     * 1.5h handson [[/​tutorial/​networkanalysis|Networkanalysis]]
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 +    ​