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Analyze your NGS data with Basepair

Quickly analyze RNA-seq, DNA-seq, ChIP-seq and ATAC-seq data with Basepair’s automated pipelines. Our cloud platform instantly scales to analyze thousands of samples in parallel.

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Our Customers

COVID-19 Researchers: We can help speed up your work with fast NGS analysis pipelines and premium support. Contact us to learn about special pricing for COVID-19 research.

How Basepair Works

STEP 1

Upload your NGS data to Basepair and select the analyses you want to run from among 30+ automated pipelines.

STEP 2

Basepair starts running your analysis. Thanks to our cloud-based software and AI-powered algorithms, most analyses take 1 hour or less to run. Basepair is fast!

STEP 3

Your analysis is ready! Your results are available online in an interactive report: share your report with colleagues anywhere in the world, use filters and sliders to adjust parameters, download high-res figures, and export files for additional analysis. 

Features At A Glance

Web-based

Ready 24/7. No software to install, no hardware to buy. All you need is an internet connection

Easy to Use

Run workflows with a few clicks, less than a minute hands-on time per sample.
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Fast

Most workflows finish in an hour, multiple analyses in parallel, no wait time.

Workflows to go

Fully automated workflows for DNA-Seq, RNA-Seq, ChIP-Seq, ATAC-Seq, etc.

Support

Basepair’s scientists are available to help over phone, email, or in-person.

Custom workflows

Develop and run custom workflows using any combination of public and private tools.

API

Use REST, Python API or CLI to automate and integrate large projects.
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Security

All data is encrypted during rest and transfer and servers behind firewall.
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Trusted Automated Pipelines for Most NGS Data

DNA-Seq

QC

Alignment

Process reads

Variant calling

Annotation

RNA-Seq

QC

Alignment

Expression count

Differential expression

ChIP-Seq

QC

Alignment

Peak calling and annotation

Motifs

ATAC-Seq

QC

Alignment

Peak calling and annotation

Open chromatin regions

Learn how automated workflows simplify NGS analysis.

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Basepair Work is in Dozens of Peer-Reviewed Journals

"Fast, excellent and reasonably priced...you CAN get all three!! Thank you to the folks at Basepair for helping us deal with some difficult RNA Seq data."

Sharen Mckay

Yale University

"I really like how easy the website is to use. And how quickly the results are generated, including figures. I would have never thought about doing a new analysis like I just did."

Emilie Montenont

NYU Langone Health

"Support answers come fast and are always precise!"

 

Maria Hollnagel

Ulm University

See recent publications →

Analyze your NGS data today.

Get results in hours.

You really can do it yourself.

Start Analyzing Now