Skip to content

Commit

Permalink
Update README.md
Browse files Browse the repository at this point in the history
Added `Helpful Resources & Tools` section
  • Loading branch information
avweigel authored Mar 19, 2024
1 parent 0b5d88e commit fedb0fe
Showing 1 changed file with 16 additions and 0 deletions.
16 changes: 16 additions & 0 deletions README.md
Original file line number Diff line number Diff line change
Expand Up @@ -50,3 +50,19 @@ Tasks we support and approaches for those tasks:
- Semantic segmentation
- Signed distances
- One-hot encoding of different types of objects

## Helpful Resources & Tools
- Chunked data, zarr, and n5
- OME-Zarr: a cloud-optimized bioimaging file format with international community support (doi: [10.1101/2023.02.17.528834](https://pubmed.ncbi.nlm.nih.gov/36865282/))
- Videos about N5 and Fiji can be found in [this playlist](https://www.youtube.com/playlist?list=PLmZHHIZ9Gz-IJA7HtW8quZcuLViz9Em6e). For other questions, join the discussion on the [Image.sc forum](https://forum.image.sc/tag/n5).
- [N5 plugins for Fiji](https://openorganelle.janelia.org/news/2023-02-06-n5-plugins-for-fiji)
- Script for converting [tif to zarr](https://github.com/yuriyzubov/tif-to-zarr)
- CellMap Models
- [GitHub Repo](https://github.com/janelia-cellmap/cellmap-models) of published models
- [OpenOrganelle.org](https://openorganelle.janelia.org)
- Example of [unprocessed distance predictions](https://tinyurl.com/3kw2tuab)
- Example of [refined segmentations](https://tinyurl.com/k59pba98) that have undergone post-processing (e.g., thresholding, masking, smoothing)
- Example of [groundtruth data](https://tinyurl.com/pu8mespz)
- Visualization
- [Neuroglancer GitHub Repo](https://github.com/google/neuroglancer)

0 comments on commit fedb0fe

Please sign in to comment.