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Slides for a presentation at the Carpenter-Singh Lab
Emacs Lisp UpdatedJan 22, 2026 -
aliby Public
End-to-end processing of high throughput microscopy. Developed as part of the Swain Lab's time lapse microscopy methods.
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nahual Public
Deploy and access image and data processing models from different environments.
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dinov2 Public
Forked from facebookresearch/dinov2PyTorch code and models for the DINOv2 self-supervised learning method.
Jupyter Notebook Apache License 2.0 UpdatedJan 20, 2026 -
SubCellPortable Public
This is a convenient code wrapper to run Lundberg lab SubCell model in inference with your own images
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nahual_py312 Public
Example of a Nix+Python development environment using an older Python version.
Nix UpdatedJan 19, 2026 -
pynng Public
Forked from codypiersall/pynngPython bindings for Nanomsg Next Generation.
Python MIT License UpdatedJan 19, 2026 -
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nahual_vit Public
Implementation of Nahual server to deploy generic Vision Transformers.
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dinov3 Public
Forked from facebookresearch/dinov3Reference PyTorch implementation and models for DINOv3
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cp_measure Public
Morphological features from images and masks made easy.
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trackastra Public
Forked from weigertlab/trackastraTransformer-based cell tracking for live-cell microscopy
Python BSD 3-Clause "New" or "Revised" License UpdatedDec 14, 2025 -
cellpose Public
Forked from MouseLand/cellposea generalist algorithm for cellular segmentation with human-in-the-loop capabilities
Python BSD 3-Clause "New" or "Revised" License UpdatedDec 14, 2025 -
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random_org_files Public
An assortment of transient org-mode files so I can keep them in one place
Python UpdatedDec 9, 2025 -
2024_10_i2k_poster_flashtalk Public
Poster and flashtalk for I2K 2024 in Milan, Italy
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Poster for the CODEML workshop in ICML 2025
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copairs Public
Forked from cytomining/copairsFind pairs and compute metrics between them.
Python BSD 3-Clause "New" or "Revised" License UpdatedDec 8, 2025 -
hugo-theme-terminal Public
Forked from panr/hugo-theme-terminalA simple, retro theme for Hugo
CSS MIT License UpdatedNov 14, 2025 -
Poster for the Broad Retreat 2024, made by Hugo Hakem
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centrosome Public
Forked from CellProfiler/centrosomeAn open source image processing library
Python Other UpdatedOct 21, 2025 -
nixpkgs Public
Forked from NixOS/nixpkgsNix Packages collection & NixOS
Nix MIT License UpdatedOct 14, 2025 -
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jump_attribution Public
Forked from HugoHakem/jump_attributionUsing attribution from counterfactuals to JUMP data
Jupyter Notebook UpdatedAug 14, 2025 -
ox-hugo Public
Forked from kaushalmodi/ox-hugoA carefully crafted Org exporter back-end for Hugo
Emacs Lisp GNU General Public License v3.0 UpdatedAug 13, 2025 -
image_translation_exercise Public
Training, usage and evaluation of virtual staining models
Jupyter Notebook UpdatedJul 31, 2025
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