DeepFISH : a github repository where to find datasets, notebooks and raw images

For the opening of the topic about chromosomes segmentation on AI.ON, a github repository, DeepFISH (Sorry for the name) was created.

Today, this repo contains:

• datasets: hope to train some kind of convolution neural network to perform semantic segmentation to resolve overlapping chromosomes. The two datasets modelize the overlapping of two chromosomes.

 

• notebooks: for generating the dataset and for loading and displaying the datasets. The jupyter notebooks are written in python 3. Initially the notebook used to generate the datasets was written in python2.

 

• raw images: This is additional raw images of metaphasic chromosomes staines with DAPI and labelled with a telomeric probe (PNA-Cy3).

chromosome segmentation problem on AI.ON

The problem of chromosomes segmentation is exposed on AI.ON.
Some data for possibly training an ANN are available at kaggle and the way to produce them too.