RNA-Seq Analysis

The RNA-Seq Analysis & Visualization Platform for Bench Scientists and Bioinformaticians

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Go from data upload to data exploration through interactive visualizations in just a few clicks, no bioinformatics or coding experience needed. Basepair’s automated pipelines will handle all the intermediary steps for you, including QC, alignment, differential expression and more. However, if you want finer grained control and extensibility, then Basepair comes with enterprise features such as the CLI & API access at any usage level.

• Easy as 1, 2, 3. Upload, analyze, visualize.

Basepair makes RNA-Seq data analysis so simple that users with no programming experience, or the time to wait for days for results, could run the platform with ease in a controlled environment where mistakes can be minimized.

Even data upload is simplified, with options to drag and drop files, connect directly to Basespace or even your own cloud storage bucket. If an interesting relationship or trend in the data is then observed, this can be taken to the bioinformatician as an informed question, streamlining collaboration within and between R&D scientists and teams across an organization.

• Transparency & Reproducibility as Standard

Basepair audit-ready NGS data analysis platform was designed for reproducibility and transparency — from QC and read charts, to interactive plots ready for publication. All RNA-seq tools used in their out of the box pipelines such as STAR, DESeq2, Tophat and Cufflinks are industry standard, public domain algorithms that have been highly cited and peer-reviewed.

• Bad Data In, Bad Insights Out

All RNA-Seq reports include QC charts, which give you an overview of the quality of your data. To ensure the highest quality output, Basepair checks the raw data and assigns a quality rating. This score reveals any contamination in the input data, as well as base distribution and other useful information.