The code and other files provided here were used for processing the Dlk1-Meg3 Epi-PHR + Chromatin Tracing experiments in mouse trophoblast stem cells.

All code and material should be placed in the same directory for proper function.


Code for processing each dataset are included in "1_MainImageAnalysisPipeline".
After combining data from all datasets, the code in "2_DataAnalysis" is used for all analysis.

Supporting code and materials are included in "3_SupportingMaterials".

In some cases, issues with the experiment must be resolved using the code in "4_SpecialUseCaseMaterials".

