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Coding in Python
Alexander Holmes edited this page Jul 5, 2023
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This course covers the basics of programming within Python through the lens of neuroscience and neuroimaging.
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It covers basics from variables and loops, to data manipulation and statistics.
- Most other plotting tools (including ones listed below) are built upon Matplotlib, so these are important fundamentals
edX ~1 hour
- This will give you a very brief introduction to Python and programming, including an introduction to variables and if statements
DataCamp ~4 hours
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This course is slightly longer but addresses many topics in more detail.
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The material is taught with an emphasis on data science, which may be useful for broader industry careers and avenues outside of academia (although it's still helpful for academia too)
France Universite Numerique (FUN) ~20-30 hours
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Semi-introductory course to Python with an emphasis on machine learning.
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For new PhD students, this can be claimed for your graduate PD hours by submitting the corresponding form on the HDR website
Basic guide that covers types of variables, lists, dicts, functions, numpy, matplotlib, etc.
- 0.0 NSB Programming Courses (in ALPHA)
- 1.0 Working on the Cluster
- 2.0 Programming Languages
- 2.1 Python
- 2.1.1 Getting Set Up
- 2.1.2 Coding in Python
- 2.1.3 Applications of Python in Neuroimaging
- 2.2 MATLAB
- 2.3 R and RStudio
- 2.4 Programming Intro Exercises
- 2.5 git and GitHub
- 2.6 SLURM and Job Submission
- 2.1 Python
- 3.0 Neuroimaging Tools and Packages
- 3.1 BIDS
- 3.2 FreeSurfer
- 3.3 FSL
- 3.4 Connectome Workbench/wb_command
- 3.5 fMRIPrep
- 3.6 QSIPrep
- 3.7 MICApipe
- 3.8 MRIQC
- 4.0 Specialist Tools