Workflows
Drag bioinformatics tools into a DAG inside your browser tab. Outputs flow live, parameters re-execute on the fly, and the whole thing is just a static page that runs WebAssembly.
See it in action
A short, silent preview of the BioChef app building and running a DAG. Press play for the full walkthrough with audio.
Editor preview
A four-node sketch of what the Workflow page looks like in the BioChef app. Click a node to see what feeds it and what it produces.
In practice
Three things people actually do with the Workflow page today.
Variant calling
Align reads with minimap2, sort and index with samtools, then call variants with bcftools — or go viral: minimap2 → ivar / viralconsensus for a consensus genome. A full mapping-to-variants pipeline, no upload needed.
Data prep
Run fastp for QC and adapter trimming, chain samtools view/stats/flagstat or GTO statistics to triage FASTQ/BAM/CRAM, and convert between FASTA, FASTQ, SEQ, BAM ↔ SAM, GTF ↔ GFF (gffread). All in one signed recipe.
Education
Share a recipe link with a class. Anyone can open it in the browser and walk through the same DAG step by step.
Catalogue
A snapshot of the 31 signed recipes currently in the public BioChef catalogue, grouped by what they do. Every tool runs as WebAssembly in your browser tab.
sequence · format · genomic · amino acid · info · text
minimap2 · lastz · mummer4/nucmer · ssw · ksw2 · edlib
bcftools · ivar · viralconsensus
samtools view/sort/stats · fastp · samblaster
muscle · kalign · abPOA · fasttree · ASTER · tn93
bedtools intersect · cgranges coverage
fermi-lite assemble · prodigal · modbam2bed
seqtk · gffread — subseq · convert · filter
gawk · grep · sed · jq · coreutils
New recipes added by the community
Badges count recipes per family (GTO counts operations). Workflows can pipe FASTA, FASTQ, BAM, SAM, CRAM, VCF, BCF, BED, GFF, PAF, JSON, LIST and more between tools. See the full catalogue in the app →
Runtime
Every step runs in the browser via WebAssembly. Server-side runtimes are on the roadmap.
Live runtime
Every shipped tool runs entirely in your browser tab. No upload, no install, no server.
Where
Your browser tab
Compiled with
Emscripten · biowasm
Loaded by
Signed digest from registry