CellMAP: an open-source software tool to batch-process cell topography and stiffness maps collected with an atomic force microscope
Abstract Atomic force microscopy (AFM) is the gold-standard technique to simultaneously map the morphology and viscoelastic properties of living cells. Although existing software tools, both open-source and from AFM manufacturers, can analyze cells individually, there is a growing need for fast and...
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| Main Authors: | , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
BMC
2025-02-01
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| Series: | BMC Bioinformatics |
| Subjects: | |
| Online Access: | https://doi.org/10.1186/s12859-025-06060-0 |
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| Summary: | Abstract Atomic force microscopy (AFM) is the gold-standard technique to simultaneously map the morphology and viscoelastic properties of living cells. Although existing software tools, both open-source and from AFM manufacturers, can analyze cells individually, there is a growing need for fast and accessible codes to compile data from multiple cells into a single dataset. To address this, we present CellMAP, a user-friendly software tool that streamlines the batch-processing of AFM-derived topography and stiffness maps of living cells. Our analysis pipeline includes but is not limited to: flattening of the underlying substrate surface, filtering of outlier values, measurement of the cell surface and volume, and measurement of height and stiffness distributions. CellMAP can also generate a composite cell that reflects the height and stiffness properties of an entire cell population. |
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| ISSN: | 1471-2105 |