.devcontainer

This is a devcontainer configuration for setting up a Data Science development environment with Python and R in Visual Studio Code.

Main Features

Base Environment

• Based on Jupyter minimal-notebook image
• Complete development environment for Python and R
• Pre-installed Quarto v1.6.39 documentation tool

Python Environment

• Includes common data analysis packages:
  • scanpy
  • leidenalg
  • pandas, numpy, and other basic packages

R Environment

• Full R development support, including radian terminal
• Pre-installed bioinformatics and data analysis packages:
  • tidyverse suite
  • Seurat and extensions
  • DESeq2
  • harmony
  • targets workflow tool
  • and other analysis packages

Development Tool Configuration

• Git preset configuration
• R language server formatting settings
• lintr code checking configuration
• VSCode extensions and settings

System Tools

• Basic development tools: vim, htop, parallel, etc.
• Complete build environment: build-essential
• GitHub CLI tools

Usage Instructions

The container automatically configures all necessary environments, including:

• R package installation and configuration
• Development environment permissions
• VSCode integration setup

Runs as jovyan user by default, with sudo privileges for environment configuration.

The container executes postCreateCommand.sh for final configuration upon creation.