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Beta notebooks
Beta notebooks
 
 
BioImage.io notebooks
BioImage.io notebooks
 
 
deprecated
deprecated
 
 
CARE_2D_ZeroCostDL4Mic.ipynb
CARE_2D_ZeroCostDL4Mic.ipynb
 
 
CARE_3D_ZeroCostDL4Mic.ipynb
CARE_3D_ZeroCostDL4Mic.ipynb
 
 
ChangeLog.txt
ChangeLog.txt
 
 
CycleGAN_ZeroCostDL4Mic.ipynb
CycleGAN_ZeroCostDL4Mic.ipynb
 
 
Deep-STORM_2D_ZeroCostDL4Mic.ipynb
Deep-STORM_2D_ZeroCostDL4Mic.ipynb
 
 
LICENSE.txt
LICENSE.txt
 
 
Latest_Notebook_versions.csv
Latest_Notebook_versions.csv
 
 
Latest_ZeroCostDL4Mic_Release.csv
Latest_ZeroCostDL4Mic_Release.csv
 
 
Noise2Void_2D_ZeroCostDL4Mic.ipynb
Noise2Void_2D_ZeroCostDL4Mic.ipynb
 
 
Noise2Void_3D_ZeroCostDL4Mic.ipynb
Noise2Void_3D_ZeroCostDL4Mic.ipynb
 
 
ReadMe.txt
ReadMe.txt
 
 
StarDist_2D_ZeroCostDL4Mic.ipynb
StarDist_2D_ZeroCostDL4Mic.ipynb
 
 
StarDist_3D_ZeroCostDL4Mic.ipynb
StarDist_3D_ZeroCostDL4Mic.ipynb
 
 
Template_ZeroCostDL4Mic.ipynb
Template_ZeroCostDL4Mic.ipynb
 
 
U-Net_2D_Multilabel_ZeroCostDL4Mic.ipynb
U-Net_2D_Multilabel_ZeroCostDL4Mic.ipynb
 
 
U-Net_2D_ZeroCostDL4Mic.ipynb
U-Net_2D_ZeroCostDL4Mic.ipynb
 
 
U-Net_3D_ZeroCostDL4Mic.ipynb
U-Net_3D_ZeroCostDL4Mic.ipynb
 
 
YOLOv2_ZeroCostDL4Mic.ipynb
YOLOv2_ZeroCostDL4Mic.ipynb
 
 
ZeroCostDL4Mic_UserManual_v1.3.pdf
ZeroCostDL4Mic_UserManual_v1.3.pdf
 
 
fnet_2D_ZeroCostDL4Mic.ipynb
fnet_2D_ZeroCostDL4Mic.ipynb
 
 
fnet_3D_ZeroCostDL4Mic.ipynb
fnet_3D_ZeroCostDL4Mic.ipynb
 
 
pix2pix_ZeroCostDL4Mic.ipynb
pix2pix_ZeroCostDL4Mic.ipynb
 
 

ReadMe.txt

ZeroCostDL4Mic is a toolbox for the training and implementation of common Deep Learning approaches to microscopy imaging. It exploits the ease-of-use and access to GPU provided by Google Colab. Training data can be uploaded to the Google Drive from where it can be used to train models using the provided Colab notebooks in a web-browser. Predictions on unseen data can then be performed within the same notebook, therefore not requiring any local hardware or software set-up.

More information about the use of ZeroCostDL4Mic can be found in the enclosed Manual or in our wiki page:

https://github.com/HenriquesLab/ZeroCostDL4Mic/wiki

The latest version of our ZeroCostDL4Mic Colab notebooks can be found at in our Github page:
https://github.com/HenriquesLab/ZeroCostDL4Mic

1. System requirements

Our notebooks are Jupiter notebooks optimised to run in Google Colab :
https://colab.research.google.com/notebooks/intro.ipynb

No specialised hardware or software is required as everything runs on the cloud. All that is needed is an up-to-date web browser. 
While not strictly required, we recommend the users to use a Google account to login into Google Colab and use our notebook. This will allow them to upload and store data in Google Drive. More information is available in the ZeroCostDL4Mic Manual or our Wiki pages.

2. Installation guide

To start using ZeroCostDL4Mic, you can either:
	- upload the notebook(s) directly in Google Colab
	- Click on the links available in our wiki pages

More information is available in the Manual. A step-by-step video is also available here:
https://www.youtube.com/watch?v=l46tDyLO8QQ&feature=youtu.be

3. Demo and Instructions for use

A full step-by-step guide is available in the enclosed Manual. 
A video detailing how to use our notebook is also available here:
https://www.youtube.com/watch?v=l46tDyLO8QQ&feature=youtu.be
We also provide datasets that can be used to test the various notebooks. These datasets can be downloaded from Zenodo. The links to the latest versions of the dataset are available from our wiki:
https://github.com/HenriquesLab/ZeroCostDL4Mic/wiki