fly2p 0.2.2

Tools for analyzing 2p (calcium) imaging data collected in flies (or other insects).

fly2p

Tools for analyzing imaging data collected with Vidrio Scanimage software or micromanger. Loading ScanImage data relies on scanimageReader, which can be installed via 'pip install scanimage-tiff-reader'. Other dependencies are tracked using poetry.

Organization

The fly2p package contains the following submodules:

• preproc: Some file-format specific functions that extract metadata and load the imaging data. imgPreproc.py defines a data object to hold metadata and imaging data as well as basic proporcessing functions.
• viz: A collection of utility functions related to plotting flourescence traces and images.

In addition, the scripts folder contains notebooks that illustrate how to use functions in this module based on example files in sample (sample files are not currently pushed to repo, but will be made available through figshare).