Microscope image analysis

Every cell in every image, measured the same way.

Upload a folder of fluorescence images, tune the analysis on a few of them, then run the whole experiment with those settings. CellSpy finds the cells, measures them and gives you the numbers as spreadsheets you can open and the images you can zoom into.

Illustration of fluorescent cells: green cell bodies, blue nuclei and magenta cilia, a few outlined as measured — Tissue · 63x · 7 of 26 cells outlined

Gloved hands placing a coverslip on a glass slide at a lab bench — Prepare and stain your slides as you always have.

A researcher at a fluorescence microscope, the cells on the screen beside her — Image them, then drop the experiment's folder into CellSpy, one subfolder per condition.

Two researchers reviewing fluorescence images and intensity plots on a monitor — Review the measured cells together and compare conditions in the spreadsheet.

How it works

1
Upload a folder

Every folder of images in it becomes one analysis, up to four levels deep, so ACT/rep1 and Veh/rep1 stay apart. The results come back in the same folders.
2
Tune on a preview

Pick up to four images and try the settings. Each preview shows the cells it found over the image, in a viewer you can zoom to single pixels, and the first rows of the spreadsheet.
3
Run the whole Batch

One batch run measures every image with the same settings and keeps them as a numbered version. Change a setting and run again; both versions stay side by side.

For labs

Accounts by invitation

Your lab's admin invites each researcher. Every sign-in needs a password and an authenticator code.

Each researcher's own work

Researchers see their own Batches. Admins see every Batch in the lab.

A GPU only while it works

The analysis machine starts for a run, in about two to three minutes, and stops itself when it's idle.

Results you can keep

Batch runs are kept for 14 days, or for a year for the Batches you choose. Download any of them as a zip.