Flow cytometry, imaging, and mice, in one immunology workspace
An immunology experiment is one story told across four tools. Conspecta keeps the FCS file, the tissue image, the animal it came from, and the figure it ends up in inside a single project.
The immunology bench, in one browser tab
One project. Every FCS file, image, and figure stays linked to the mouse, timepoint, condition, and genotype behind it.
Import
Upload the FCS files into the project the samples already live in. Conspecta starts where the cytometer stops, and is not acquisition software.
How most labs do it today. FCS files land on a shared acquisition computer that gets wiped on a schedule. What leaves the core is a USB stick or a Dropbox folder named after a date.
Compensation
Compensate from the spillover matrix embedded in the FCS, from an imported CSV matrix, or auto-computed from a single-stain control file, which stays in the project beside the panel.
How most labs do it today. The matrix lives inside one person's workspace file. The single-stain controls it came from live in a different folder.
Gating
Rectangle, polygon, ellipse, quadrant, range, and boolean gates, saved as a reusable hierarchy the whole lab gates from.
How most labs do it today. The gating strategy is a .wsp file on one laptop, opened with one seat of a per-seat licence. When the postdoc leaves, the strategy leaves with them.
Clustering
UMAP, t-SNE, PCA, SOM and graph clustering (FlowSOM-style and PhenoGraph-style), K-means, and DBSCAN, all in the browser with nothing to install.
How most labs do it today. Either a plugin to install on every machine, or a bioinformatician in the loop for a result you needed on Tuesday.
Imaging
Open an image and a segmentation model counts every cell, with no threshold to tune. Area, marker intensity, and multi-channel z-stacks on LIF, TIFF, and PNG in the browser, attached to the same sample as the flow data from that mouse.
How most labs do it today. The IF image of the spleen section and the FCS file from the same animal live in different apps, different folders, and different naming schemes. Nothing but your memory connects them.
Stats
Gate statistics feed charts, MFI comparisons, and kinetics directly. Adjust a gate and the numbers downstream follow it.
How most labs do it today. Every re-gate means a fresh export and a fresh paste, and the bar chart keeps no record of which gate produced it.
Mice
Each FCS file links to the sample it was measured from, and that sample carries its timepoint, condition, and genotype into every plot built from it.
How most labs do it today. Which file was mouse 4, day 14, IL-10 knockout? The answer is a filename convention, right up until someone renames a file.
Write-up
Notes, flow analysis, and multi-panel figures sit in one project, and the figure is built from the analysis rather than pasted next to it.
How most labs do it today. The notebook describes the gate in prose. The figure is a screenshot of a plot that has since been re-gated twice.
See it on your own panel
Drop in an FCS file and start gating in the browser. Nothing to install, and no licence tied to one machine in one building.