biowasm-compile

Compile bioinformatics C/C++ tools to WebAssembly using Emscripten.

Updated Feb 23, 2026

Search Tags:#bioinformatics #client-side #compilation #webassembly #emscripten #biocomputing

Ready to run

npx skills add https://github.com/happykhan/biowasm-compile-skill --skill biowasm-compile

💬 Prompt for ChatGPT / Claude Chat▼

Please help me install this Agent Skill.
Skill: biowasm-compile
Source: https://github.com/happykhan/biowasm-compile-skill/tree/main
Command: npx skills add https://github.com/happykhan/biowasm-compile-skill --skill biowasm-compile

SYSTEM DOCUMENTATION & REQUIREMENTS

💡 This Skill includes references (resource) components.

What problem does it solve?

This Skill simplifies the complex process of compiling bioinformatics C/C++ tools into WebAssembly (WASM) format, enabling them to run directly in web browsers.

Core Features & Use Cases

WASM Compilation: Compiles genomics tools (like SKESA, Mash, minimap2, samtools) to WebAssembly using Emscripten.
Browser-Based Pipelines: Facilitates running bioinformatics tools client-side for platforms like GenomicX, eliminating server-side dependencies.
Use Case: You need to integrate a command-line genomics tool into a web application. Use this Skill to generate the necessary compile.sh script and WASM output (.js and .wasm files).

Quick Start

Use the biowasm-compile skill to generate a compile.sh script for compiling the 'mash' tool to WebAssembly.

Frequently Asked Questions about biowasm-compile

High-intent search queries and answers about installing and using this skill.

FAQPage Schema

How do I compile bioinformatics C/C++ tools to WebAssembly?▼

You can compile bioinformatics tools like minimap2 and samtools to WebAssembly using Emscripten. This Skill generates a compile.sh script that builds C/C++ source code into .js and .wasm files, following the biowasm pattern to enable client-side execution.

Can I run command-line genomics tools like minimap2 and Mash directly in a web browser?▼

Yes, command-line genomics tools like minimap2 and Mash can run directly in a web browser by compiling them to WebAssembly. This eliminates server-side dependencies and enables client-side execution in browser-based genomics pipelines like GenomicX.

What is the biowasm pattern for porting genomics tools?▼

The biowasm pattern is an approach for porting genomics tools to WebAssembly using Emscripten. It involves creating compile.sh scripts for C/C++ scientific tools and building WASM versions that execute entirely client-side in web applications.

Do I need Emscripten to build WebAssembly versions of C/C++ scientific tools?▼

Yes, Emscripten is required to build WebAssembly versions of C/C++ scientific tools. It serves as the compiler backend that translates bioinformatics source code into the .js and .wasm files needed for browser-based execution.

What output files do I get when compiling bioinformatics tools to WASM?▼

Compiling bioinformatics tools to WASM produces a compile.sh script for the build process and WebAssembly output files, specifically .js and .wasm files. These files integrate directly into web applications for client-side execution.