Further reading¶
Biological image formats¶
- Unifying biological image formats with HDF5
- BioHDF for next generation sequencing, The Case for HDF, Introduction to BioHDF
- “Our current estimates are that there are approximately 80 proprietary file formats for optical microscopy alone (and not including other common imaging techniques) that must be supported by any bioimage informatics tool that aims to provide a generalizable solution. In short, the lack of standardized access to data makes the generation of informatics tools quite difficult.” Reference
- Bio-Formats Java Library
- A HDF5 I/O plugin for ImageJ
Neuroimaging formats¶
Visualization formats¶
Microscopy formats and metadata¶
- Open Microscopy Environment (OME): Metadata matters: access to image data in the real world