This notebook is part of FRETBursts burst analysis software.
Welcome! You are reading a Jupyter Notebook, a document containing narrative, code and the output of code execution. Here you will find a few basic instructions on running FRETBursts notebooks.
Please send feedback and report any problem opening a [FRETBursts Issue](https://github.com/tritemio/FRETBursts/issues) on GitHub.
The notebook is composed of "text cells", such as this paragraph, and "code cells"
containing the code to be executed (and identified by an In [ ] prompt).
To execute a code cell, select it and press SHIFT+ENTER.
To modify a cell, click on it to go into "edit mode" (indicated by a green frame
around the cell), then type. When your are done, SHIFT+ENTER will end the editing.
You can also execute the entire notebook in a single step by using the menu Cell -> Run All.
As an example, try to run the following code cell:
In [ ]:
2 + 2
Finally, for a mini-tour of the various interface elements click on menu Help -> User Interface Tour.
Each FRETBursts notebook is set up to download and analyze a sample data
file. To use your own data file, you need to paste its name in the
filename variable in the FRETBursts notebook of your choice.
Data files up to ~35 MB can be directly uploaded from the dashboard. Just go back to the Home Tab and click on the Upload button on the top right.
For large files (>35 MB), the upload button will not work.
In this case, you have to first upload the file somewhere on the internet,
and then copy the file URL in the url variable in the
FRETBursts notebook you want to use.
FRETBursts includes several notebooks. We recommend to start with the μs-ALEX notebook which is the most detailed tutorial covering most of the basic aspects of burst analysis.
Official Jupyter Project Homepage:
Paper on using notebooks for research:
Interactive notebooks: Sharing the code. Shen (2014) Nature doi:10.1038/515151a
Installing *Jupyter Notebook* on your computer and firsts steps: