Update headings

tools/index.md

@@ -4,40 +4,40 @@ A list of tools and libraries with OME-Zarr support. These are developed by vari
 
 In addition to this collection, an evaluation of selected tools/libraries is available on <https://ome.github.io/ome-ngff-tools/>.
 
-
-## Image viewers with OME-Zarr support
+## Image viewers
 
 ### AGAVE
+
 <https://github.com/allen-cell-animated/agave>
 
 A desktop application for viewing multichannel volume data.
 
-
 ### ITKWidgets
+
 <https://github.com/InsightSoftwareConsortium/itkwidgets>
 
 A Python interface for visualization on the web platform to interactively generate insights into multidimensional images, point sets, and geometry.
 
-
 ### MoBIE/BDV
+
 <https://github.com/mobie/mobie-viewer-fiji>
 
 A Fiji plugin for exploring and sharing big multi-modal image and associated tabular data.
 
-
 ### napari
+
 <https://github.com/napari/napari>
 
 A fast, interactive, multi-dimensional image viewer for Python that supports OME-Zarr with the [napari-ome-zarr](https://github.com/ome/napari-ome-zarr) plugin.
 
-
 ### Neuroglancer
+
 <https://github.com/google/neuroglancer>
 
 A WebGL-based viewer for volumetric data.
 
-
 ### Viv (Avivator, Vizarr, Vitessce, ...)
+
 <https://github.com/hms-dbmi/viv>
 
 A WebGL-powered toolkit for interactive visualization of high-resolution, multiplexed bioimaging datasets.
@@ -46,121 +46,120 @@ The viv toolkit is used by the [Avivator](https://avivator.gehlenborglab.org), [
 
 <iframe style="width: 100%; height: 500px" name="vizarr" src="https://hms-dbmi.github.io/vizarr/?source=https://uk1s3.embassy.ebi.ac.uk/idr/zarr/v0.1/4495402.zarr"></iframe>
 
-
 ### WEBKNOSSOS
+
 <https://github.com/scalableminds/webknossos>
 
 An open-source tool for annotating and exploring large 3D image datasets.
 
-
 ### AICS Image Viewer
+
 <https://github.com/allen-cell-animated/website-3d-cell-viewer>
 
 A browser-based volume viewer built with React and WebGL (Three.js).
 
-
-## Tools for converting image files to OME-Zarr
+## File conversion
 
 ### bioformats2raw
+
 <https://github.com/glencoesoftware/bioformats2raw>
 
 Java application to convert image file formats, including .mrxs, to an intermediate Zarr structure compatible with the OME-NGFF specification.
 
-
 ### NGFF-Converter
+
 <https://github.com/glencoesoftware/NGFF-Converter>
 
 A GUI application for conversion of bioimage formats into OME-NGFF (Next-Generation File Format) or OME-TIFF.
 
-
 ### stack_to_multiscale_ngff
+
 <https://github.com/CBI-PITT/stack_to_multiscale_ngff>
 
 A tool for converting multi-terabyte stacks of images into a multiscale OME-NGFF Zarr.
 
-
 ### BatchConvert
-<https://github.com/Euro-BioImaging/BatchConvert>
 
-A Nextflow based command-line tool that wraps bioformats2raw for parallelised conversion of image data collections to OME-Zarr. 
+<https://github.com/Euro-BioImaging/BatchConvert>
 
+A Nextflow based command-line tool that wraps bioformats2raw for parallelised conversion of image data collections to OME-Zarr.
 
-## Libraries for reading/writing OME-Zarr files
+## File reading/writing
 
 Various libraries for reading/writing OME-Zarr files in Python were evaluated as part of the BioVisionCenter "Next generation bioimage analysis workflows hackathon" 2023 in Zurich, Switzerland: https://github.com/jwindhager/ome-ngff-readers-writers/.
 
-
 ### bfio
+
 <https://github.com/PolusAI/bfio>
 
 A Python interface to Bioformats using jpype for direct access to the library.
 
-
 ### Bio-Formats
+
 <https://github.com/ome/bioformats>
 
 A standalone Java library for reading and writing life sciences image file formats.
 
-
 ### BioIO
+
 <https://github.com/bioio-devs/bioio>
 
 (formerly AICSImageIO <https://github.com/AllenCellModeling/aicsimageio>)
 
 Image Reading, Metadata Conversion, and Image Writing for Microscopy Images in pure Python.
 
-
 ### ngff-zarr
+
 <https://github.com/thewtex/ngff-zarr>
 
 A lean and kind Open Microscopy Environment (OME) Next Generation File Format (NGFF) Zarr implementation.
 
-
 ### multiscale-spatial-image
+
 <https://github.com/spatial-image/multiscale-spatial-image>
 
 Generate a multiscale, chunked, multi-dimensional spatial image data structure that can serialized to OME-NGFF.
 
-
 ### ome-zarr-py
+
 <https://github.com/ome/ome-zarr-py>
 
 A Python library for reading and writing multi-resolution images stored as Zarr filesets, according to the OME NGFF spec.
 
-
 ### ITKIOOMEZarrNGFF
+
 <https://github.com/InsightSoftwareConsortium/ITKIOOMEZarrNGFF>
 
 An ITK external module for IO of images stored in Zarr-backed OME-NGFF file format.
 
-
 ## Other tools and libraries
 
 ### Fractal
+
 <https://fractal-analytics-platform.github.io/>
 
 A framework to process OME-Zarr data at scale with modular processing tasks and to prepare it for interactive visualization.
 
-
 ### Nyxus
+
 <https://github.com/PolusAI/nyxus>
 
 A scalable library for calculating features from intensity-label image data.
 
-
 ### ome-ngff-validator
+
 <https://github.com/ome/ome-ngff-validator>
 
 Web page for validating OME-NGFF files.
 
-
 ### SpatialData
+
 <https://github.com/scverse/spatialdata>
 
 An open and universal framework for processing spatial omics data.
 
-
 ### tensorstore
+
 <https://github.com/google/tensorstore/>
 
 Library for reading and writing large multi-dimensional arrays (e.g., Zarr).