Blog
Life Before & After Basepair
Our team of bioinformaticians and developers have spent over 15 years conducting NGS data analysis before starting Basepair. During the ol' manual NGS data analysis days, there were some good times... and there was also plenty of frustration. Much of NGS data analysis...
Achieving data provenance with Basepair’s automated audit trails
When auditing goes wrong Is your genomics team keeping track of the open source tools it’s using? What about software version numbers and the parameters being set? Genome reference files, usage logs, the custom scripts bioinformaticians are deploying? If you’re not...
How Memorial Sloan Kettering Cancer Center analyzed 200 NGS samples, without a line of code
When Dr. Omar Abdel-Wahab at Memorial Sloan Kettering Cancer Center decided to undertake a project exploring the molecular mechanisms of ASXL2 - a frequently mutated gene in acute myeloid leukemia patients with the AML1-ETO fusion oncoprotein - he had three choices:...
Preparing your NGS data for reproducibility and auditing
Audits are probably the most dreaded aspect of NGS data analysis, and like specters, they come in many forms to haunt you. You might need to publish results from several years back, only to realize that the open source tools you used have dramatically changed, forcing...
Basepair API features
We’ve heard the war stories from our fellow bioinformaticians and lab directors: waking up bleary-eyed in the middle of the night to check on the results of an NGS data analysis pipeline, converting files to different formats, setting up the next step of their...
Visualizing your NGS results with Basepair
Writers write, painters paint, genomics researchers… wait patiently for algorithm pipelines to finish processing NGS data, only to spend as much time visualizing results? As long-time researchers and bioinformaticians, we’re well aware that in NGS data analysis, every...
How automated workflows simplify NGS analysis
NGS Data Analysis Bottlenecks One of the biggest bottlenecks in next generation sequencing (NGS) today is data analysis, which is surprising considering that we have massive compute available at our fingertips, the available infrastructure to process thousands of...