SHAPE-Morph/CO_timecourse

Figure 3E: cardiac organoid Control vs FC time course, source images

Source images of the cardiac organoid (CO) Control-vs-FC time course behind manuscript Figure 3E. The run records of the three-arm analysis of these images are in the dataset SHAPE-Morph/result, folder figure3d-e_co_timecourse/; that folder's README states that the images were not included there. They are here.

Content

One 96-well plate, 23 wells, imaged at 8 time points (184 well-by-day image sets).

Folder	Time point	Wells
bs/	baseline	23
d2/, d6/, d8/, d10/, d12/, d16/	day 2, 6, 8, 10, 12, 16	23 each
d4/	day 4	24 (well F6 was also imaged on this day; it is not one of the 23 study wells)

Three files per well and time point:

File	Content
<well>_<seq>_1_1_Phase Contrast_001.tif	phase contrast, uint16, 904 x 1224
<well>_<seq>_2_1_GFP_001.tif	GFP channel, uint16, 904 x 1224
<well>_<seq>_2_1_GFP_001.png	RGB rendering of the GFP channel, 1224 x 904

timecourse_conditions.csv gives the condition of every well at every time point (day,condition,well): Control = B3-B6, C3-C6, D3-D6 (12 wells), FC = E3-E6, F3-F5, G3-G6 (11 wells).

SHA256.txt lists the SHA-256 of every image file, computed on the source cluster copy before transfer.

What is not here

The source folder also holds one two-page .tiff per well and time point (88 FC files at its top level, 96 Control files in Control/). Page 0 of each is identical to the phase-contrast .tif and page 1 to the GFP .tif (checked on one FC and one Control file), so these duplicates were left out. Their file names are the source of the condition table.

Origin

Sherlock, $SCRATCH/shape_benchmark/Organoids/CO-FC_timecourse/ (purge-managed scratch), copied 2026-11-10.