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An Overview of Variant Calling and Analysis in NGS Data
Introduction In recent years, Next-Generation Sequencing (NGS) technologies have revolutionized the field of genomics, enabling researchers to study the genomes of organisms with unprecedented speed and accuracy. However, the large amounts of data generated by these...
Best Practices for Quality Control and Pre-processing of NGS Data: A Guide for Academic Researchers
As academic researchers, we know that the analysis of next-generation sequencing (NGS) data can be complex and time-consuming. The quality of NGS data directly affects the accuracy of downstream analyses, making it essential to ensure that high-quality data is...
PRESS RELEASE: Arima Genomics Announces New Partnership with Basepair to Accelerate Bioinformatics Analysis of 3D Genomics Data
San Diego, Calif. – November 3, 2022—Arima Genomics, Inc., the leader in 3D genomics, today announced a new partnership with Basepair to empower scientists with new options for bioinformatic analysis of 3D genomic data. The deal will make the Arima Genomics...
User-Friendly NGS Analysis Software Improves Embryo Selection & IVF Success Rates
One of the pioneering medical device companies specializing in IVF (In Vitro Fertilization) found itself at a crossroads. They already had a multi-billion dollar portfolio of instruments, assays, and culture media and decided to expand their portfolio to include a...
BQSR recalibration in the GATK pipeline: Bioinformatics Office Hours Question of the Week – September 1 2022
Is it necessary to do base quality score recalibration (BQSR) in the GATK pipeline? How should this be done without an available vcf file of known sites? (a) Unfortunately the quality scores produced by next generation sequencing instruments are subject to various...
Providing Superpowers to Bioinformaticians
Cell and Gene Therapy Biotechnology Company Case Study Time is everything for a bioinformatician. With an active R&D group constantly creating new datasets that need to be analyzed, keeping up with their requests is an uphill battle. The newly hired...
Basepair’s ChIP-seq Analysis Pipelines Now Include Pathway Enrichment Analysis
As you may already know, Basepair offers a number of very popular tools for ChIP-seq analysis, seamlessly taking your FASTQ files to meaningful results. From trimming and alignment, peak calling and annotation, to motif enrichment and now, pathway enrichment analysis...
