de novo Assembly Solution

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The Chromium de novo Assembly Solution

True Diploid Assembly with the Supernova Assembler

Discover the true genome with the Supernova Assembler and open the door to low-cost, everyday
diploid assemblies. Unlock sample-specific sequences, probe diploid genome structure
and remove the need for a reference sequence of any kind.

Our Solution Features

  • High-quality assembly from only 1 ng of DNA
  • True diploid assembly unlike other methods
  • Fast and simple de novo assembly workflow
  • Go from sample to assembly in <2 weeks
  • 10 Mb scaffold size and long range accuracy
  • Validated and supported for human genomes*
View the Workflow

*Note on non-human samples: Supernova™ is a de novo assembly program that has been designed to assemble germline human genomes, from data generated using Chromium™ Genome Reagent Kits. 10x Genomics has validated Chromium™ Genome Reagent Kits and Supernova only on human genomes. Therefore, using Supernova to assemble non-human genomes is experimental and may have unexpected features that limit assembly quality. Despite this, many users have successfully assembled non-human genomes using Supernova.


The Chromium Controller

Compact, sleek, efficient.

The compact, sleek Chromium Controller has been designed to rapidly and efficiently automate the equivalent of 100,000s to 1,000,000s of pipetting steps for highly parallel sample partitioning and molecular barcoding.

View Our Controller Gallery


Chromium Genome v2 Library Kit
& Gel Bead Kit

The Chromium Controller now supports our new Chromium Genome Reagent Kits with v2 chemistry, with the following refinements:

  • Chromium Genome Library Kit & Gel Bead Kit v2 comes in 16 and 96-reaction (HT) configurations, offering a flexible workflow that can be scaled based on the needs of each user
  • The Chromium Genome HT Library Kit & Gel Bead Kit v2 can be automated on industry standard liquid handlers and has a significant cost advantage per sample


  • Chromium Genome HT Library Kit & Gel Bead Kit v2, 96-reactions
  • Chromium Genome Library Kit & Gel Bead Kit v2, 16-reactions
  • Chromium Genome Chip Kit v2, 48-reactions

Purchase Separately:

  • Chromium i7 Multiplex Kit, 96-reactions
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Chromium de novo Assembly Solution

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Everyday de novo assembly with the Supernova Assembler

David Jaffe
10x Genomics, Inc.
September 10, 2016
Pleasanton, CA

Improving genome analysis with Linked-Reads

Deanna Church
10x Genomics, Inc.
August 15, 2016
Pleasanton, CA
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ARCS: Assembly roundup by Chromium scaffolding

Yeo S et al. 2017 Jan 17; Pre-print*.

De novo assembly and phasing of a Korean human genome

Seo JS et al. Nature. 2016 Oct 5;538(7624):243-247. doi: 10.1038/nature20098. PMID: 27706134.

Assembly of the complete Sitka Spruce chloroplast genome using 10x Genomics’ GemCode sequencing data

Coombe L et al. PLoS One. 2016 Sep 15;11(9):e0163059. doi: 10.1371/journal.pone.0163059. PMID: 27632164.

Direct determination of diploid genome sequences

Weisenfeld NI et al. 2016 Aug 19; Pre-print*.

ABySS 2.0: Resource-efficient assembly of large genomes using a Bloom filter

Jackman SD et al. 2016 Aug 7; Pre-print*.

A hybrid approach for de novo human genome sequence assembly and phasing

Mostovoy Y et al. Nat Methods. 2016 Jul;13(7):587-90. doi: 10.1038/nmeth.3865. PMID: 27159086.