High-volume and cost-effective sequencing software

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Our vision is to make genomic information ubiquitous through an innovative, software-first approach

components

1

Library preparation

The first step is to prepare your population’s DNA samples. For the library preparation, we provide the necessary protocols and consultative services depending on your sequencing hardware.

2

Low-pass whole genome sequencing

Next, the genome is randomly sequenced but at shallower depths hence the name low-coverage or low-pass sequencing. We have three options for sequencing your samples: in our lab, our preferred network of service providers, or you may directly upload a FastQ file to the Gencove platform. Our lightning-fast speeds and multiple upload paths ensure this step is simple.

3

Imputation and analysis

Once the low-pass data is uploaded to the Gencove platform, it is compared to a fully sequenced and assembled standard haplotype genome of that particular organism. This step, called imputation, results in millions of over 99% accurate variant calls for every sample. Gencove builds comprehensive reference panels and continually enhances our data sets and algorithms to ensure the highest performing imputation. To further extend the value of your investment, we offer additional analysis, without the hassle of designing and developing another array. Now, your team can focus on innovation instead of struggling with the mechanics of large-scale genomic data analysis.

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Professional

Species-specific* packagesEach species package evolves over time as we process more samples, please refer to our Technical Documentation for the latest information.
- Human sequencing projects includes copy number variation (CNV) analysis, ancestry analysis, and computation of select polygenic risk scores.
- Cattle genomics covers breed analysis and additional polymorphisms.
- Canine package includes breed analysis.
- Maize sequencing package has strain analysis and multi-allelic SNPs.
- Rat sequencing includes strain analysis.

  • Gencove platform access
  • FastQ file uploads
  • Multiple quality checks

Single user

Data access and management

  • API or CLI

Low-pass sequencing

  • Aligned BAM
  • Imputed VCF to reference genomes

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Business

Species-specific* packagesEach species package evolves over time as we process more samples, please refer to our Technical Documentation for the latest information.
- Human sequencing projects includes copy number variation (CNV) analysis, ancestry analysis, and computation of select polygenic risk scores.
- Cattle genomics covers breed analysis and additional polymorphisms.
- Canine package includes breed analysis.
- Maize sequencing package has strain analysis and multi-allelic SNPs.
- Rat sequencing includes strain analysis.

  • Gencove platform access
  • FastQ file uploads
  • Multiple quality checks

Unlimited users

Data access and management

  • API or CLI
  • Special sharing and permissions
  • Webhooks and custom notifications
  • Merged VCF

Low-pass sequencing

  • Aligned BAM
  • Imputed VCF to reference genomes

Advanced analytics

  • Custom developed haplotype reference panel for your sole use

Client support and services

  • Library prep: training manuals and onboarding resources
  • Dedicated success manager

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Enterprise

Species-specific* packagesEach species package evolves over time as we process more samples, please refer to our Technical Documentation for the latest information.
- Human sequencing projects includes copy number variation (CNV) analysis, ancestry analysis, and computation of select polygenic risk scores.
- Cattle genomics covers breed analysis and additional polymorphisms.
- Canine package includes breed analysis.
- Maize sequencing package has strain analysis and multi-allelic SNPs.
- Rat sequencing includes strain analysis.

  • Gencove platform access
  • FastQ file uploads
  • Multiple quality checks

Unlimited users

Data access and management

  • API or CLI
  • Special sharing and permissions
  • Webhooks and custom notifications
  • Merged VCF
  • HIPAA/Audit trails
  • Single tenant infrastructure
  • Extended data lifecycle management
  • Compliance agreements

Low-pass sequencing

  • Aligned BAM
  • Imputed VCF to reference genomes
  • Targeted capture or Exome upgrade

Advanced analytics

  • Custom developed haplotype reference panel for your sole use
  • Proprietary Polygenic Risk Scoring
  • Associate genetic variation with phenotypes for Genome-Wide Association Studies (GWAS)
  • Novel Variant Detection**Low-coverage comparisons within a population to detect novel variants.
  • Germline variant calling (WGS, WES)***Low-coverage comparisons within a population to detect novel variants.
  • Somatic variant calling (Tumor/Normal)****Contact us
  • Microbiome profiling****Contact us

Client support and services

  • Library prep: training manuals and onboarding resources
  • Dedicated success manager
  • Custom sequencing protocol development

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More power and flexibility

Start with ready-to-run or custom pipelines

Choose an existing pipeline or work with Gencove’s scientists to optimize the platform for your application

Select the appropriate deployment model that fits your needs

End-to-end

From biological sample to data through our sequencing partners that have already integrated with Gencove

In-house

Set up the low-pass lab workflow in your lab and seamlessly use the Gencove imputation and analysis SaaS

SaaS-only

Integrate Gencove directly with your existing systems or greenfield deployments

Gencove’s platform is scalable and fast to set up for your organization’s high-throughput genotyping and analysis programs

Cloud-scale

Gencove is cloud-native, meaning end-to-end analysis is done in the cloud

Security

Rest assured Gencove is using industry-accepted best practices and frameworks

Compliance

Gencove is HIPAA compliant and aligns itself with ISO27001 and SOC2

Speed

Fast analytics together with lightning-fast uploads and downloads through CLI tools

Collaboration

Share projects with colleagues across your organization

Integration

Integrate directly with our API for production-ready workloads

Customization

Private configurations and reference panels for custom populations can be made available

Support

If you run into a snag, our team is there to help quickly and efficiently