Oren Amsalem
Postdoctoral Researcher at Harvard Medical School
Cambridge, Massachusetts, United States
Summary
🤩
Rockstar🎓
Top SchoolOren Amsalem is a postdoctoral researcher based in Cambridge, MA with 11 years of experience at the intersection of computational neuroscience and machine learning. He holds a PhD in Computational Neuroscience from The Hebrew University of Jerusalem and currently conducts research at Harvard Medical School and Beth Israel Deaconess Medical Center. Prior to academia he built production-ready ML algorithms at OrCam, translating research ideas into deployable assistive-vision features. An active open-source contributor, Oren has improved data handling and GUI reliability in the widely used suite2p calcium-imaging toolbox and enhanced usability and documentation in the Hugging Face Transformers library. He combines deep domain expertise in neural data analysis with practical engineering skills in model optimization and tooling, often focusing on reproducible data pipelines and parameter robustness. Colleagues describe him as someone who moves seamlessly between rigorous experimental work and pragmatic software improvements that accelerate team productivity.
11 years of coding experience
2 years of employment as a software developer
Doctor of Philosophy - PhD, Computational Neuroscience, Doctor of Philosophy - PhD, Computational Neuroscience at The Hebrew University of Jerusalem
Stackoverflow
5,001reputation
1.8mreached
54answers
59questions
tensorflow
top-5%
matplotlib
top-5%
while-loop
top-5%
python
top-5%
Github Skills (19)
pytorch10
python10
machine-learning10
imaging10
numpy10
neuroscience10
transformer10
nlp10
data-analysis10
matplotlib9
hub9
tensorflow9
documentation9
while-loop9
byte6
Programming languages (22)
Github contributions (5)
huggingface/transformers
Nov 2019 - Mar 2021
🤗 Transformers: State-of-the-art Machine Learning for Pytorch, TensorFlow, and JAX.
Role in this project:
ML Engineer
ML EngineerContributions:7 commits, 8 PRs, 12 comments in 1 year 4 months
Contributions summary:Oren contributed to the Hugging Face Transformers library by implementing a progress bar for a feature conversion process, indicating a focus on performance optimization. They also addressed a spelling correction and corrected documentation related to the extra_id tokens used in the T5 model. Additional contributions include example corrections and cleanup of the generation utils, indicating a focus on usability and model documentation.
pythonbertspeech-recognitionstate-of-the-artflax
MouseLand/suite2p
Oct 2020 - Nov 2021
cell detection in calcium imaging recordings
Role in this project:Data Scientist
Data ScientistContributions:5 commits, 7 PRs, 12 comments in 1 year 1 month
Contributions summary:Oren made several contributions focused on data handling and configuration within the `suite2p` project. They modified the documentation to reflect changes in default parameters related to data loading and batch processing. The user also fixed a bug related to file reloading in the GUI, demonstrating involvement in the project's interface and data processing workflow. These contributions point to a focus on data processing and parameter optimization.
data-analysisneuroscienceimagingcalcium-imagingsignal-processing
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