ClaireDataAnalysis

Scripts and tools for automated image processing for Claire PhD project

v 1.0 Doug Kelly https://www.linkedin.com/in/doug-kelly-794a8736 2016-03-11

Getting started:

Processing:

• in kymographBase.m, configure userParameters to taste. Comments indicate default values and provide explanation
• run kymographBase(root), where root is a directory containing raw data arranged in folders in _E<embryo #>
• (alternatively, run kymographUpDownWrapper(root) to generate kymographs both "above" and "below" the cut axis)

Viewing:

• run viewerMain
• Load data (File -> Load data..., Ctrl + O) - select a base folder in which data is arranged in subfolders named , Embryo <#> wards
• Load metadata (File -> Load metadata..., Ctrl + D)
• Browse data, pulling up particular kymographs by clicking (close to) points on the speed vs position plots
• Middle and rightmost view panels have context menus with useful bits
• Kymographs can be selected (i.e. quality controlled) by Include? toggle in context menu on rightmost panel
• Metadata, fitted data and stats for included kymographs using the data export wizard (File -> Data export wizard...)