From 41ef5e7c75ecc810416067187fb3f5a168023944 Mon Sep 17 00:00:00 2001 From: Aubrey Weigel <62092911+avweigel@users.noreply.github.com> Date: Tue, 19 Mar 2024 16:07:46 -0400 Subject: [PATCH] Update README.md --- README.md | 8 ++++++-- 1 file changed, 6 insertions(+), 2 deletions(-) diff --git a/README.md b/README.md index 9d067afc6..7c78932df 100644 --- a/README.md +++ b/README.md @@ -55,10 +55,14 @@ Tasks we support and approaches for those tasks: - 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) + - Read about chunked storage plugins in Fiji in this blog: [N5 plugins for Fiji](https://openorganelle.janelia.org/news/2023-02-06-n5-plugins-for-fiji) + - Script for converting tif to zarr can be found [here](https://github.com/yuriyzubov/tif-to-zarr) + - Segmentations + - A description of local shape descriptors used for affinities task. Read the blog [here](https://localshapedescriptors.github.io/). Example image from the blog showing the difference between segmentations: + - ![](https://localshapedescriptors.github.io/assets/img/detection_vs_segmentation_neurons.jpeg) - CellMap Models - [GitHub Repo](https://github.com/janelia-cellmap/cellmap-models) of published models + - For example, the COSEM trained pytorch networks are located [here](https://github.com/janelia-cellmap/cellmap-models/tree/main/src/cellmap_models/pytorch/cosem). - [OpenOrganelle.org](https://openorganelle.janelia.org) - ![](https://raw.githubusercontent.com/janelia-cellmap/dacapo/main/docs/source/_static/mito_pred-seg.gif) - Example of [unprocessed distance predictions](https://tinyurl.com/3kw2tuab)