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Hello, I am Jingqi Duan. Welcome to my github.

I am a structural biologist 🧑‍🔬 of 10+ academic years research experience with major interest in RNA-protein complexes and their related human diseases. In academy, I was appealed to machine learning💻 and thrilled to the enormous applications of machine learning in life science research🔬. Therefore, I attended UCSD Machine Learning Engineering Bootcamp and completed it in 2023 🎉. Acquainted with ML knowledge, my exploration of ML application in biological research has just began. I have personal interests in computer vision in microscope images or medical tests, and ML in detection of disease-related patterns from RNAseq dataset.

This space contains scripts I developed for cryoEM image processing, DNA/RNA sequence analysis, microscope image processing, and my capstone project in the UCSD bootcamp. While it displayed my capabilities, I mainly want to alluring collaborations, the essence of the github design.

I can be reached via 📧 [email protected]. Any question or comment is appreciated.

Jingqi Duan's Projects

3dcellseg icon 3dcellseg

Official implementation of "A novel deep learning-based 3D cell segmentation framework for future image-based disease detection". (However, I think the title should be "3DCellSeg - a robust deep learning-based 3D cell instance segmentation pipeline".)

cnv-pg icon cnv-pg

CNV-PG: a machine-learning framework for accurate copy number variation predicting and genotyping

cocoapi icon cocoapi

COCO API - Dataset @ http://cocodataset.org/

dtreeviz icon dtreeviz

A python library for decision tree visualization and model interpretation.

glow icon glow

An open-source toolkit for large-scale genomic analysis

keras-rcnn icon keras-rcnn

Keras package for region-based convolutional neural networks (RCNNs)

mask_rcnn_tf2 icon mask_rcnn_tf2

Mask R-CNN for object detection and instance segmentation on Keras and TensorFlow

rsna-2023-1st-place-solution icon rsna-2023-1st-place-solution

Code and Documentation for the first place solution in 2023 Abdominal Trauma Detection Competition hosted by RSNA on Kaggle.

rtcpredictor icon rtcpredictor

A software tool for the prediction of read-through chimeric RNAs from RNA-Seq data.

tf_unet icon tf_unet

Generic U-Net Tensorflow implementation for image segmentation

unet_tf2 icon unet_tf2

Generic U-Net Tensorflow 2 implementation for semantic segmentation

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