Micro-Manager is a software framework for implementing advanced and novel imaging procedures, extending functionality, customization and rapid development of specialized imaging applications.
Micro-Manager offers the functionality for saving the acquired images in TIFF/OME-TIFF format. Based on the mode of saving and the configuration settings, the acquired image can be saved with or without a companion file (:file:`*metadata.txt`):
| Micro-Manager saving option | Micro-Manager saving format | Companion file | Bio-Formats reading | Reader users |
|---|---|---|---|---|
| Save as separate image files | TIFF | Yes | Full support | :doc:`/metadata/MicromanagerReader` |
| Save as image stack file | OME-TIFF | No | Pixel data plus minimal metadata* | :doc:`/metadata/OMETiffReader` |
| Save as image stack file | OME-TIFF | Yes** | Full Support | :doc:`/metadata/MicromanagerReader` |
* Not all acquisition metadata is converted to OME-XML.
** A small change in the acquisition side facilitates better handling of
the metadata from the Bio-Formats side:
:menuselection:`Tools --> Options...` and then select "Create metadata.txt
file with Image Stack Files" in the text box.
.. seealso:: `Micro-Manager User's Guide - Files on Disk <https://micro-manager.org/Micro-Manager_User's_Guide#files-on-disk>`_