Assemblytics

1. Input Data

📁 Drop .delta or .delta.gz file here
or click to browse

2. Parameters

Unique Anchor Length (bp)

Minimum length of unique sequence required to anchor an alignment. Consider decreasing for small (e.g. bacterial) genomes.

Min Variant Size (bp)

Smallest structural variant to report.

Max Variant Size (bp)

Largest structural variant to report.

GitHub Cite paper

All analysis happens in your web browser via WebAssembly. Your data doesn't get uploaded anywhere, and you can download a zip file of the results when it's finished.

Welcome to Assemblytics

Assemblytics detects structural variants from an assembly aligned to a reference genome. This version runs entirely in your web browser using WebAssembly and Web Workers.

How to use:

Generate a .delta file using MUMmer's nucmer:

nucmer -maxmatch -l 100 -c 500 REFERENCE.fa ASSEMBLY.fa -prefix OUT

Drop the OUT.delta (or OUT.delta.gz) file on the left sidebar.
Adjust parameters if needed (defaults are usually fine for most genomes).
Click Run Analysis.

No software installation is required, and your data remains private.

Load Dot files

Run Assemblytics to generate these automatically, or load previously prepared files.

Load .coords file

Load .coords.idx file

1. Input Data

2. Parameters

Analysis Progress

Summary Statistics

Visualizations

Files

Welcome to Assemblytics

How to use:

Load Dot files