Update README.md

README.md

@@ -2,20 +2,37 @@
 license: gpl-3.0
 language:
 - en
+pipeline_tag: image-segmentation
 ---
 
-### 3DL_NuCount model
+# 3DL_NuCount model
 
-Original Paper: _M1BP is an essential transcriptional activator of oxidative metabolism during Drosophila flight muscle development
-Gabriela Poliacikova, Marine Barthez, Thomas Rival, Aïcha Aouane, Nuno Miguel Luis, Fabrice Richard, Fabrice Daian, Nicolas Brouilly, Frank Schnorrer, Corinne Maurel-Zaffran, Yacine Graba and Andrew J. Saurin**_
+__Paper__: M1BP is an essential transcriptional activator of oxidative metabolism during Drosophila flight muscle development. _Gabriela Poliacikova, Marine Barthez, Thomas Rival, Aïcha Aouane, Nuno Miguel Luis, Fabrice Richard, Fabrice Daian, Nicolas Brouilly, Frank Schnorrer, Corinne Maurel-Zaffran, Yacine Graba and Andrew J. Saurin**_
 
 
 #### Model description
 
-__3DL_NuCount__ model has been designed by fine tuning a pretrained Stardist3D model  using a home made dataset in order to 
+__3DL_NuCount__ model has been designed by fine tuning a pretrained Stardist3D model [1,2] using a home made dataset [3] in order to assess the number of cells present in a given 3D image stack acquired using an optical microscope.
 
+#### Stardist Training parameters
 
-#### References
-- Stardist Project:[Github](https://github.com/stardist/stardist)
-- Stardist Paper :  [ArXiv](https://arxiv.org/abs/1908.03636)
+- patch size:  (48,96,96)
+- batch size:  32
+- epochs    :  100
+- data augmentation : flip/rotation/intensity
+- image normalization: normalize channel independantly
+- anisotropy:  empirical
+- rays      :  96
+
+#### Training dataset parameters
+- tile size : (4,63,128,128)
+- split     : Train 0.8 / Val 0.2
 
+#### Inference
+- patch size: (784,784,:)
+- image size: (2048,2048,:)
+
+#### References
+- [1] Stardist Project:[Github](https://github.com/stardist/stardist)
+- [2] Stardist Paper :  [ArXiv](https://arxiv.org/abs/1908.03636)
+- [3] Training Data  : [Zenodo](https://)