IF 3
Analyze single-cell co-expression of three IF markers, segment cells into nucleus, perinuclear area, and/or cytoplasm, and export up to 20 intensity, statistic, and morphometric parameters per compartment.
single-cell analysis
tumor microenvironment
multiplex IF
immunophenotyping
co-expression, cytoplasmic staining, phenotyping, fluorescence
The IF 3 App provides single cell based co-expression analysis for three IF markers. It segments cells into nucleus, and/or perinuclear area and/or cytoplasm. Each segmented cell compartment is measured for up to 20 intensity, statistic and morphometric parameters which can be displayed in scattergrams and histograms and exported.
Original image
Nuclei detection
Marker 1 detection
Marker 2 detection
Co-Expression
immunophenotyping
Webinar
20 Jan, 2026
Decoding Metastatic Potential in Colorectal Cancer Using Tissue Cytometry
multiplex IF
White Paper
17 Oct, 2025
Integrative Multiomics Approach Unveils Systemic Dysfunction in Colorectal Cancer (CRC)
tumor microenvironment
Webinar
20 Jan, 2026
Decoding Metastatic Potential in Colorectal Cancer Using Tissue Cytometry
single-cell analysis
White Paper
30 Mar, 2026
Understanding NeuroCOVID-19: SARS-CoV-2 Disrupts Astrocyte Homeostatic Functions
We support the following file formats:
- TissueFAXS (aqproj)
- StrataFAXS II (vmic)
- PreciPoint (vmic, gtif)
- Generic BigTIFF Import
- Support for multipage BigTIFF files
- OME-TIFF
- JPEG, PNG, BMP, TIFF
- Zeiss (czi)
- Hamamatsu NanoZoomer (ndpi)
- Aperio (svs)
- Leica (scn)
- 3D HISTECH Pannoramic
- Mirax (mrxs)
- Olympus (vsi)
- More slide scanners to be added!
Related Apps
IF 4
Analyze single-cell co-expression of four IF markers, segment cells into nucleus, perinuclear area, and/or cytoplasm, and export up to 20 intensity, statistic, and morphometric parameters.
co-expression, phenotyping, fluorescence, epithelial cells, immune cells
IF Cellular Contact
Determine cellular phenotypes in IF-stained samples, analyze direct cell–cell contacts, and quantify marker intensity, morphometric parameters, and number/% of contacting phenotypes.
cell contacts, spatial interactions, phenotype interactions, B cells, T cells, lung, lymph node, COVID-19, SARS-Cov-2
IF Cellular microenvironment
Determine phenotypes of specific IF-stained cell populations, analyze spatial relationships to neighboring cells and metastructures (e.g. vessels, tumors), and perform proximity and infiltration analyses.
phenotyping, phenotype interactions, proximity map, spatial landscape, immune cells, tumor, colon cancer, TMA, Foxp3, CD4, CK, PD-1, T regulatory cells, fluorescence
Custom App development
Perfectly tailored image analysis solutions for your research.
You have a specific research question that needs to be answered? We offer custom development of image analysis pipelines for specific tasks, be it detection of cellular phenotypes or quantification of tissue structures. After discussing your goals with one of our experts, you will get a ready-to-use App and be a step closer to an impactful publication.
