Ready for pre-print release

What's Changed

• setup repo by @MikeLippincott in #1
• Begin profiling by @MikeLippincott in #2
• Update CP analysis pipelines and environment by @jenna-tomkinson in #3
• Update CP_parallel utility script to include plugins directory by @jenna-tomkinson in #4
• rerun with preproccess by @MikeLippincott in #5
• merge cytoplasmic channels by @MikeLippincott in #6
• Run CP and scDINO pipeline by @MikeLippincott in #8
• Segment anything model 2 implementation pilot by @MikeLippincott in #10
• Refactor directories for files by @MikeLippincott in #15
• Sam2 run by @MikeLippincott in #16
• Integrate SAM into cellprofiler and post-processing for image-based profiles by @MikeLippincott in #17
• platemap generation by @MikeLippincott in #18
• refactor the file structure by @MikeLippincott in #19
• refactor ic by @MikeLippincott in #20
• Cell tracking by @MikeLippincott in #21
• Sc dino run by @MikeLippincott in #25
• Merge scDINO and Cellprofiler profiles by @MikeLippincott in #26
• Rerun post profiling processing by @MikeLippincott in #24
• Cellprofiling timelape data by @MikeLippincott in #22
• Cell tracks stats extraction by @MikeLippincott in #28
• Aggregate cp and sc dino profiles by @MikeLippincott in #29
• Whole image processing by @MikeLippincott in #27
• Add dose to agg profiles by @MikeLippincott in #30
• Rerun aggregation by @MikeLippincott in #31
• Redo platemap - fix typo by @MikeLippincott in #32
• Rerun ibp for terminal profiles by @MikeLippincott in #34
• Check terminal profiling by @MikeLippincott in #33
• Rerun the profiles by @MikeLippincott in #36
• Refactor modules by @MikeLippincott in #37
• Fix aggregation step by @MikeLippincott in #38
• Preprocess terminal data by @MikeLippincott in #39
• Fix segmentations by @MikeLippincott in #40
• Update platemap by @MikeLippincott in #42
• Offsets plot by @MikeLippincott in #41
• Update the readme by @MikeLippincott in #43
• Refactor modules by @MikeLippincott in #44
• Refactor profiling and tracking by @MikeLippincott in #45

New Contributors

• @MikeLippincott made their first contribution in #1
• @jenna-tomkinson made their first contribution in #3

Full Changelog: https://github.com/WayScience/live_cell_timelapse_apoptosis/commits/v0.0.1