Access Bioinformatics Databases with Biopython

Welcome to the Access Bioinformatics Databases with Biopython repository! This project showcases the use of Biopython to interact with various bioinformatics databases. The repository provides example scripts and Jupyter notebooks that guide you through accessing, retrieving, and analyzing data from popular databases in the field of bioinformatics.

Learning Objectives

1. Biopython Setup
   Install and set up Biopython, along with necessary dependencies, to access bioinformatics databases.

2. Database Access
   Learn how to query and retrieve data from NCBI, UniProt, and other popular bioinformatics databases.

3. Data Retrieval
   Work with different types of biological data, including sequences, annotations, and metadata, to support various bioinformatics analyses.

4. Data Manipulation
   Use Biopython tools to parse, filter, and analyze retrieved data. Integrate with other Python libraries for extended data manipulation and visualization.

Getting Started

Prerequisites

Ensure you have Python installed. To install Biopython and other necessary libraries, run:

pip install biopython

Installing

To clone the repository and get started:

git clone https://github.com/Jencheng1/Biopython.git
cd Biopython

Usage

This repository contains Jupyter notebooks that demonstrate how to access and interact with various bioinformatics databases. Open the notebooks to follow along with the tutorials.

File Overview

• biopython.ipynb: Main notebook demonstrating how to access bioinformatics databases using Biopython.

Acknowledgments

This repository was created as part of Coursera’s Access Bioinformatics Databases with Biopython course. Special thanks to the course instructors and Coursera for providing valuable learning resources.

License

This project is licensed under the MIT License - see the LICENSE file for details.

Certificate URL: https://coursera.org/share/a47fb1be28f0f3e1312776a7bf399af3