biowasm

A repository of genomics tools, compiled from C/C++ to WebAssembly so they can run in a web browser.

Getting started

• Documentation
• List of supported packages

Who uses biowasm?

| Tool | Why biowasm? | |-|-| | sandbox.bio | Runs command-line tools in the browser to power interactive tutorials | | 42basepairs | Runs samtools, bedtools, bcftools and other tools to preview genomic files | | CZ ID (repo) | Runs htsfile and seqtk to identify data issues before file upload | | Nanopore | Runs samtools to generate .bam files after basecalling in the browser | | ViralWasm (repo) | Runs minimap2 and ViralConsensus for viral molecular epidemiology analysis | | CRISPRLungo (repo) | Runs minimap2 as part of a long-read CRISPR analysis pipeline | | Datagrok (repo) | Runs kalign in the browser for multiple-sequence alignment analysis | | bedqc (repo) | Runs bedtools in the browser to validate BED files | | Ribbon (repo) | Runs samtools in the browser to parse, estimate coverage and subsample BAM files | | fastq.bio (repo) | Runs fastp in the browser to evaluate sequencing data quality |

How it works

| Tool | Description | Link | |-|-|-| | biowasm | Recipes for compiling C/C++ genomics tools to WebAssembly | This repo | | biowasm CDN | Free server hosting pre-compiled tools for use in your apps | biowasm.com/cdn | | Aioli | Tool for running these modules in a browser, inside WebWorkers | biowasm/aioli |

Logo

• Logo by tinygraphs

Contributing

See CONTRIBUTING.md.