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Article Dans Une Revue Open Research Europe Année : 2022

Qudi-HiM: an open-source acquisition software package for highly multiplexed sequential and combinatorial optical imaging

Résumé

Multiplexed sequential and combinatorial imaging enables the simultaneous detection of multiple biological molecules, e.g. proteins, DNA, or RNA, enabling single-cell spatial multi-omics measurements at sub-cellular resolution. Recently, we designed a multiplexed imaging approach (Hi-M) to study the spatial organization of chromatin in single cells. In order to enable HiM sequential imaging on custom microscope setups, we developed Qudi-HiM, a modular software package written in Python 3. Qudi-HiM contains modules to automate the robust acquisition of thousands of three-dimensional multicolor microscopy images, the handling of microfluidics devices, and the remote monitoring of ongoing acquisitions and real-time analysis. In addition, Qudi-HiM can be used as a stand-alone tool for other imaging modalities.
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Dates et versions

hal-04216511 , version 1 (25-09-2023)

Identifiants

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Franziska Barho, Jean-Bernard Fiche, Marion Bardou, Olivier Messina, Alexandre Martinière, et al.. Qudi-HiM: an open-source acquisition software package for highly multiplexed sequential and combinatorial optical imaging. Open Research Europe, 2022, 2, ⟨10.12688/openreseurope.14641.1⟩. ⟨hal-04216511⟩
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