Micro-Manager¶
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 (*metadata.txt):
| Saving Options within Micro-Manager | Format | Companion File | Bio-Formats Reading | Reader Used |
|---|---|---|---|---|
| Save as separate image files | TIFF | Yes | Full Support | MicromanagerReader |
| Save as image stack file | OME-TIFF | No | Pixel data plus minimal metadata* | OMETiffReader |
| OME-TIFF | Yes** | Full Support | 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: Tools ‣ Options... and then select “Create metadata.txt file with Image Stack Files” in the text box.