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jlchen5/README.md

🖐 Hello, I'm Chen

Bioinformatics & Computational Biology Researcher | Deep Learning Enthusiast

This is my hub for technical projects, primarily focusing on code, tools, and analysis pipelines related to genomics data analysis, single-cell sequencing (scRNA-seq), and the application of deep learning in life sciences.

🛠️ Tech Stack & Core Domains

  • Bioinformatics Analysis: NGS data processing, sequence analysis, scRNA-seq analysis pipeline construction.
  • Programming Languages: Proficient in Python, Shell, and Jupyter Notebook for data analysis and prototyping.
  • Tool Development: Creating tools to enhance computational efficiency (e.g., fmd5sum).
  • Deep Learning: Exploring deep learning models for interpreting genomics data.

📌 Featured Projects

Project Description Tech Stack
https://github.com/jlchen5 Reproduction and in-depth analysis of data from Li et al., published in Cell Regeneration (2022). HTML
NGS Read Depth Calculator A repository for calculating sequencing read depth for Next-Generation Sequencing (NGS) data. Shell
scRNA-seq Analysis Pipeline A comprehensive single-cell RNA sequencing analysis pipeline designed to resolve most common analysis challenges. Jupyter Notebook
fmd5sum A faster implementation of the md5sum tool, published on https://pypi.org/project/fmd5sum/. Python
Deep Learning in Genomics A dedicated repository for exploring the application of deep learning techniques in genomics. Python
DeepSeek-handbook Handbook and practical notes for using the DeepSeek model. -

📈 Activity Overview

My primary contributions are in the form of code commits, with additional participation in Pull Requests and Issues. You can view my https://github.com/jlchen5 for more detailed activity.

📫 Connect With Me

  • GitHub: You can directly ask me questions or initiate technical discussions via the Issues feature here on https://github.com/jlchen5.
  • For other matters, it is recommended to contact me via the email or social platforms listed in my profile.

Thanks for visiting! Feel free to explore my projects. I look forward to technical exchanges.

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  1. CELR-D-22-00015 CELR-D-22-00015 Public

    Repository that contains the analysis from Li et al. Cell Regeneration, 2022.

    HTML 2 1

  2. sequencing-read-depth-calculate sequencing-read-depth-calculate Public

    The repository is used to calculate the NGS data sequencing read depth.

    Shell 1

  3. scRNA-seq-analysis scRNA-seq-analysis Public

    For scRNA-seq analysis, this pipeline can resolve most of the problems that you may encounter.

    Jupyter Notebook 1 1

  4. fmd5sum fmd5sum Public

    fmd5sum: Made the md5sum faster and install on [PyPi](https://pypi.org/project/fmd5sum/)

    Python 2 1

  5. Deep-Learning-in-Genomics Deep-Learning-in-Genomics Public

    This repository appears to be dedicated to exploring the application of deep learning techniques in the field of genomics.

    Python 1

  6. DeepSeek-handbook DeepSeek-handbook Public

    DeepSeek使用手册（DeepSeek-handbook）

    1