Name:
Stardist_process_folder

Version:
v0.1

Type:
Script/Macro

Keywords:
DL,Stardist

Requirements:
Run on ImageJ/Fiji v1.53
Install plugin StarDist from the update sites select CSBDeep and StarDist

Brief Description:
This is a generic macro to apply a pre trained StarDist 2D model to a folder of images

Detailed Explanation:
This is a generic macro to apply a pre trained StarDist 2D model to a folder of images 
	* 
	* Input: 
	 	 ** a folder of 2D greyscale images 
	 	 ** an empty folder to store the output result 
	 	 ** pre-trained zip model file
	 	 ** probability threshold (0-1)
	 	 ** NMS threshold (0-1)
		 
	* Output: 
	     ** Labelled cells in tif format

DataSet Description:
NA

External Location:
https://github.com/mafsousa/ALM_BIA-scripting-tools/blob/main/StarDist_process_folder.ijm

Link To Publication:
https://analyticalscience.wiley.com/do/10.1002/was.000400090

Authors:
Mafalda Sousa - Advanced Light Microscopy,i3S - Instituto de Investigação e Inovação em Saúde