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BQSR recalibration in the GATK pipeline: Bioinformatics Office Hours Question of the Week – September 1 2022

by Rohan Sharma | Sep 12, 2022 | Bioinformatics

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...

Faster Than a Sequencing Core: How the Yale Glazer Laboratory Used Basepair to Analyze 150 Samples with Custom NGS Panels

by Stuart Davis | Jul 7, 2020 | Announcements

Biomedical engineer Rachael Putman completed her undergraduate degree just last year, but this hasn’t stopped the young scientist from pursuing cutting-edge research as part of the Glazer Lab at Yale University. Putman’s research is focused on exploring the possible...

Large projects with hundreds of samples? Try these fully automated upload options on Basepair

by Stuart Davis | Mar 9, 2020 | Announcements

Basepair has an easy-to-use upload page that is ideal for the majority of our users. Select the samples you want to upload from your local computer, specify the sample metadata, and start the upload. Samples upload as fast as your internet connection allows.  But what...

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  • The Hidden Limitation of Bioinformatics
  • PRESS RELEASE: Scale Biosciences and Basepair to Democratize Single Cell Sequencing Data Analysis
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