BAM Viewer for Visual Studio Code

BAM Viewer is a Visual Studio Code extension that allows you to view BAM (Binary Alignment Map) files directly in your editor. It converts BAM files to CSV format for easy viewing and analysis.

Features

• Open BAM files directly in VS Code
• Convert BAM to CSV format for easy viewing
• View all SAM fields, including auxiliary data
• Real-time progress tracking during conversion
• Mutithreading support for faster conversion

Usage

1. Install the extension
2. Make sure SAMtools is installed and available in your system's PATH.
3. Open a BAM file in VS Code
4. The extension will automatically convert the BAM file to CSV
5. View and analyze your BAM data in CSV format

Free Trial

BAM Viewer is currently available as a free trial. We're constantly working to improve the extension and would love to hear your feedback!

Recommended Extensions

For an enhanced CSV viewing experience, we recommend using the Rainbow CSV extension. Rainbow CSV provides syntax highlighting for CSV files, making it easier to read and analyze your converted BAM data.

Requirements

• Visual Studio Code v1.60.0 or higher
• Samtools must be installed and accessible in your system's PATH

Installation

1. Install Visual Studio Code 1.60.0 or higher
2. Install Samtools and ensure it's in your system's PATH
3. Launch Code
4. From the extension view (Ctrl+Shift+X), search for "BAM Viewer"
5. Click Install to install it
6. Click Reload to reload the window

Known Issues

• Large BAM files may take a while to convert
• Currently, the entire BAM file is converted to CSV, which may use significant disk space for large files

Release Notes

0.0.1

Initial release of BAM Viewer

For more information

• Visual Studio Code's Markdown Support
• Markdown Syntax Reference

Enjoy!