Two-photon calcium imaging analysis code for investigation of polarization-sensitive neurons in the Drosophila anterior visual pathway (AVP)

Corresponding data can be found in the project repository at the Open Science Framework.

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/classes

Matlab object classes with core functions for analysis of tiff files:

• SlidebookObj

  Superclass, one object per tiff file.
  Provides base functions for avp4DmaxObj - not used directly.
  Additional documentation: github.com/bjhardcastle

• avp4DmaxObj

  Subclass of SlidebookObj for polarization experiments.
  One object per tiff file (single imaging plane or max intensity projection).

• avp4DsuperObj

  Independent class for groups of associated avp4DmaxObj
  One object per recording.
  Contains multiple objects:

  • active channel (GCaMP)
    • MIP (single avp4DmaxObj)
    • individual layers from stack ([1xN] avp4DmaxObj array)
  • static channel (tdTomato)
    • MIP (single avp4DmaxObj)
    • individual layers from stack ([1xN] avp4DmaxObj array)

• /additionalfuncs, /icons

  Extra functions for plotting or viewing data, many third-party, including modified version of James Strother's Neuron Image Analysis GUI for playback of tiff files: bitbucket.com/jastrother

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/scripts

• /load_object_functions

  Loads .mat files in objarrays along with some additional variables/processing.

• /make_figure_panels

  Scripts for running analysis and printing plots.

• /plotting

  General functions for visualizing data or specific scripts to generate one-off plots.

• /refresh

  Scripts to re-analyze and store .mat files in /mat/plotting/

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notes

Convert polarizer angles as-recorded to convetion used in publication: wrapTo180(-theta-270)

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