analysis:nsb2018

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- | ~~DISCUSSION~~ | + | Welcome! This is the home page for the van der Meer lab's data management and analysis tutorials using MATLAB. |

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- | Welcome! This is the home page for the data management and analysis tutorials for the NS&B 2018 mouse striatum module. | + | |

=== Contents === | === Contents === | ||

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* [[analysis:nsb2017:week2|Module 2: Introduction to neural data formats and preprocessing]] | * [[analysis:nsb2017:week2|Module 2: Introduction to neural data formats and preprocessing]] | ||

* [[analysis:nsb2016:week3long|Module 3: Visualizing raw neural data in MATLAB]] ([[analysis:nsb2016:week3short|Short version]]) | * [[analysis:nsb2016:week3long|Module 3: Visualizing raw neural data in MATLAB]] ([[analysis:nsb2016:week3short|Short version]]) | ||

- | * [[analysis:nsb2017:spikesort|Module 4: Spike sorting]] | + | * [[analysis:nsb2017:spikesort|Module 4: Spike sorting tetrode data]] |

== Time series data data basics: do as needed == | == Time series data data basics: do as needed == | ||

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Basic familiarity with MATLAB. Depending on your background and programming experience you might find the following resources helpful: | Basic familiarity with MATLAB. Depending on your background and programming experience you might find the following resources helpful: | ||

- | * Textbook: {{:analysis:wallisch_matlabforneuro.pdf|Wallisch, MATLAB for Neuroscientists}} | + | * Textbook: Wallisch, MATLAB for Neuroscientists |

* [[http://www.mathworks.com/help/matlab/getting-started-with-matlab.html?s_cid=learn_doc|"Getting Started with MATLAB" Primer]]. | * [[http://www.mathworks.com/help/matlab/getting-started-with-matlab.html?s_cid=learn_doc|"Getting Started with MATLAB" Primer]]. | ||

* [[http://www.mathworks.com/matlabcentral/about/cody/ | Cody]], a continually expanding set of problems with solutions to work through, with a points system to track your progress | * [[http://www.mathworks.com/matlabcentral/about/cody/ | Cody]], a continually expanding set of problems with solutions to work through, with a points system to track your progress | ||

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This course is "standalone", but the following textbooks provide more in-depth treatment of some of the topics. | This course is "standalone", but the following textbooks provide more in-depth treatment of some of the topics. | ||

- | * Textbook: {{:analysis:leis_dspusingmatlab.pdf|Leis, Digital Signal Processing using MATLAB for Students and Researchers}} | + | * Textbook: Leis, Digital Signal Processing using MATLAB for Students and Researchers |

- | * Textbook: {{:analysis:johnstonwu.pdf|Johnston and Wu, Foundations of Cellular Neurophysiology}} | + | * Textbook: Johnston and Wu, Foundations of Cellular Neurophysiology |

- | * Textbook: {{:analysis:dayanabbott_theoneuro.pdf|Dayan & Abbott, Theoretical Neuroscience}} | + | * Textbook: Dayan & Abbott, Theoretical Neuroscience |

+ | * Textbook: Cohen, Analyzing Neural Time Series Data | ||

+ | * Textbook: Kramer & Eden, Case Studies in Neural Data Analysis | ||

=== What this tutorial provides === | === What this tutorial provides === | ||

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=== Acknowledgments === | === Acknowledgments === | ||

- | The architecture of the code used here was inspired by a similar set of code by my post-doctoral mentor, [[http://redishlab.neuroscience.umn.edu/ | A. David Redish]]; several of the data types and functions are re-implementations of Redish lab functions of the same name. Major contributions to the codebase were made by Alyssa Carey (a former grad student in the lab and NS&B TA) and Youki Tanaka (current grad student and NS&B alum). | + | The architecture of the code used here was inspired by a similar set of code by my post-doctoral mentor, [[http://redishlab.neuroscience.umn.edu/ | A. David Redish]]; several of the data types and functions are re-implementations of Redish lab functions of the same name. Major contributions to the codebase were made by Alyssa Carey (a former grad student in the lab and NS&B TA) and Youki Tanaka (former grad student and NS&B alum). |

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