MATLAB Applied to Neuronal Data

6 EC

Semester 1, period 2

5234MATN6Y

Owner Master Biomedical Sciences
Coordinator C.A. Bosman Vittini
Part of Master Biomedical Sciences, track Oncology, Master Biomedical Sciences, track Cognitive Neurobiology and Clinical Neurophysiology, Master Biomedical Sciences, track Psychopharmacology and Pathophysiology, Master Biomedical Sciences, track Infection and Immunity, Master Biomedical Sciences, track Cell Biology and Advanced Microscopy, Master Biomedical Sciences, track Experimental Internal Medicine, Master Biomedical Sciences, track Molecular Neurosciences, Master Biomedical Sciences, track Physiology of Synapses and Networks, Master Biomedical Sciences, track Developmental and Therapeutic Biology, Master Biomedical Sciences, track Medical Biochemistry and Biotechnology,

Course manual 2021/2022

Course content

Research in contemporary neuroscience requires a solid foundation in data analysis. Data analysis in Neuroscience heavily relies on the ability to use proper software for analysis, as MATLAB. The purpose of this course is to give the students an overview of the advanced analytical techniques currently used in cognitive neuroscience, to provide computational programming skills to implement these analytical techniques using the computational software MATLAB and to use these algorithms to analyze real neuroscientific data

Study materials

Literature

  • Attaway, Stormy. Matlab: a practical introduction to programming and problem solving. Butterworth-Heinemann, 2013.

Practical training material

Software

  • http://fieldtrip.fcdonders.nl
  • http://nl.mathworks.com/

Objectives

  •  Describe the formal aspects of basic and advanced methods of statistical inference testing
  •  Actively judge what type of different analytical methodologies can be used in different neuroscientific problems
  •  Use basic programming MATLAB tools to analysis neuronal data
  •  Apply MATLAB programming tools and being able to solve problems based on these learning objectives
  •  Understand MATLAB code programmed by others to analyze neuronal data

Teaching methods

  • Lecture
  • Computer lab session/practical training
  • Self-study
  • Supervision/feedback meeting
  • Seminar

Learning activities

Activity

Number of hours

Computerpracticum

56

Hoorcollege

18

Tentamen

2

Vragenuur

2

Werkcollege

 6

Zelfstudie

78

Attendance

Requirements of the programme concerning attendance (OER-B):

  1. Attendance during practical components exercises is mandatory.

Assessment

Item and weight Details

Final grade

1 (100%)

Tentamen 1

Inspection of assessed work

The manner of inspection will be communicated via the digitial learning environment.

Assignments

Report Computer Practical LFP Analyses

  • A report about the activities developed during the first week of the course

Report Computer Practical Spike Analyses

  • A report about the activities developed during the second week of the course

Report Computer Practical Calcium Imaging

  • A report about the activities developed during the third week of the course

Fraud and plagiarism

The 'Regulations governing fraud and plagiarism for UvA students' applies to this course. This will be monitored carefully. Upon suspicion of fraud or plagiarism the Examinations Board of the programme will be informed. For the 'Regulations governing fraud and plagiarism for UvA students' see: www.student.uva.nl

Course structure

Weeknummer Onderwerpen Studiestof
1
2
3
4
5
6
7
8

Timetable

The schedule for this course is published on DataNose.

Additional information

Prior basic programming courses during bachelor (MATLAB, C++ or R) is desirable (not required)

Contact information

Coordinator

  • C.A. Bosman Vittini