Jenna Tomkinson

Collate() Function Directory Structure from CellProfiler - Experiment.csv not saved to subfolders

4

Hi @bethac07! I have been testing the collate function for a project I am working on in the @gwaybio lab and I have come to a bit of a roadblock....

LoadData CSV File Missing

1

Hello! I will be rerunning the Cell Health dataset that was run with CellProfiler 3.0 (I assume) using the latest CellProfiler 4.2.4 version for a project to assess any differences....

CellProfiler 4.2.6 can not be installed in conda environment with Python 3.9

1

CellProfiler 4.2.6 can not be installed in conda environment with Python 3.9 --- **Describe the bug** @d33bs and I are attempting to install CellProfiler v4.2.6 with Python 3.9 instead of...

"Extract metadata from image file headers" not working with nd2 file in headless mode

2

**Describe the bug** I am attempting to generate z-projected images from large `nd2` files (>80GB). When I try running in headless mode, the CellProfiler pipeline stops at the "Metadata" section...