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saugatme/README.md

Saugat Bhattarai

Biomedical Engineer · MSc Data-driven Health @ KTH · Working at the intersection of AI and healthcare.

Currently annotating medical imaging data at Neko Health and building projects around computer vision, medical data, and health AI.


Projects

Gait Analysis Computer vision pipeline for extracting joint and segment angles from raw video — contour detection, cubic spline interpolation, and standardized gait phase breakdowns. No pose estimation library, just OpenCV and math.

WSI Preprocessing Scalable HPC pipeline for preprocessing liver cancer Whole Slide Images — tiling, background removal, and blur detection to filter high-quality tissue regions. Containerized with Apptainer for reproducibility.

Healthcare Nanochat GPT-style medical chatbot trained from scratch on MedQuAD and MedDialog datasets. Custom BPE tokenizer, two-stage training pipeline (pretraining + fine-tuning), safety evaluation suite with 30 curated test cases, and SLURM/Bianca cluster support.


Stack

Python OpenCV NumPy pandas scikit-learn PyTorch matplotlib Jupyter


Links

LinkedIn · GitHub

Pinned Loading

  1. gait-analysis gait-analysis Public

    Computer vision pipeline for extracting joint angles from raw video using OpenCV without any pose estimation library

    Jupyter Notebook

  2. healthcare-nanochat healthcare-nanochat Public

    GPT-style medical chatbot trained from scratch on MedQuAD and MedDialog with a custom BPE tokenizer, safety evaluation suite, and SLURM support

    Python

  3. wsi-preprocess wsi-preprocess Public

    Scalable HPC pipeline for preprocessing liver cancer Whole Slide Images with tiling, background removal, blur detection

    Python