David R. Stirling

CellProfiler 4.0 Release: Improvements in speed, utility, and usability

David R. Stirling

We have now released CellProfiler version 4.0! Download it here.

The primary goal of this release has been to migrate CellProfiler from Python 2 to Python 3. This has involved extensive restructuring of the code base, leading to a lot of “under-the-hood” improvements.

Important Compatibility Notes

As a major release, this version contains changes to CellProfiler that will...

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Help! I want to use CellProfiler Analyst but I ran my pipeline with ExportToSpreadsheet!

David R. Stirling

We’ve all done this before – CellProfiler Analyst needs a database file, but your CellProfiler pipeline that took days to run was set up to export spreadsheets. To make matters worse, you also need a .properties file explaining what to do with that database. Fortunately, you don’t need to re-run the entire experiment to get your data into CellProfiler Analyst. This blog post will cover how to convert a spreadsheet into a database and make a usable .properties file with which to load it into CellProfiler Analyst.

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