AxonDeepSeg statistics

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Citations per year

Number of citations per year for the bioinformatics software tool AxonDeepSeg

Tool usage distribution map

This map represents all the scientific publications referring to AxonDeepSeg per scientific context
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AxonDeepSeg specifications


Unique identifier OMICS_28014
Name AxonDeepSeg
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS
Programming languages Python
License MIT License
Computer skills Advanced
Version 0.2
Stability Stable
numpy, scipy, scikit-learn, scikit-image, tabulate, pandas, matplotlib, tensorflow, mpld3, tqdm, pillow, imageio
Maintained Yes




No version available


Additional information

Publication for AxonDeepSeg

AxonDeepSeg citation


AxonDeepSeg: automatic axon and myelin segmentation from microscopy data using convolutional neural networks

Sci Rep
PMCID: 5830647
PMID: 29491478
DOI: 10.1038/s41598-018-22181-4
call_split See protocol

[…] The pipeline of AxonDeepSeg is composed of four steps: data preparation, learning, evaluation and prediction. Figure  illustrates each step.Figure 2In the data preparation step, raw microscopy images and correspondin […]

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AxonDeepSeg institution(s)
NeuroPoly Lab, Institute of Biomedical Engineering, Polytechnique Montreal, Montreal, QC, Canada; Ecole Centrale de Lille, Lille, France; Ecole Centrale de Nantes, Nantes, France; Functional Neuroimaging Unit, CRIUGM, Université de Montréal, Montreal, QC, Canada

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