software

AI Empowerment in Instructional Design: Insights from QM Conference 2025

Steve Kaufman, Senior Instructional Designer & Strategic Initiatives Coordinator, presented at the QM Quality in Action Conference 2025. This was their second or follow up session titled “The AI Empowered Instructional Designer 2.0.” They shared resources at bit.ly/ai-empowered-id Kaufman asked participants about their feelings on AI and whether the their institutions have policies on AI […]
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Maximizing Software Use: Teaching Strategies for Qualitative Analysis

One of the last MAXDAYS sessions was a presentation by Joel Drevlow on “Teaching Qualitative Data Analysis with MAXQDA.” Drevlow is a freelance consultant/researcher and has a company called iQDAS Consulting. Drevlow has experience as a MAXQDA Certified Trainer and program evaluator. He asked the audience to consider the complicated relationship between software and analysis. […]
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Highlights from ENIGMA Workshop on Isolate Sequencing

Tonight I watched Lauren Lui from Lawrence Berkley National Laboratory present a “Long Read Isolate Sequencing and Assembly Workshop.” This session was recorded April 2, 2024 and was part of the ENIGMA program. Lui provided an overview of the apps they use: Filtlong, Unicycler, Polypolish, and Flye. The team was motivated by evolving long-read technologies […]
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Advancements in Carrier Screening: Insights from Experts

Alex Lindell, Senior Director at Oxford Nanopore Technologies in the Clinical division, facilitated the Showcase on “Carrier Screening” at the Nanopore Community Meeting in Boston. Bradley Hall from Asuragen US spoke about developing an eleven-gene panel for traditionally difficult-to-detect variants. The kit is a carrier screening panel using Asuragen’s technologies. Next, Anne-Sophie Lebre from CHU […]
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Innovative NESSI-Seq for Biomarker Discovery

Chad Pollard from Wasatch BioLabs spoke at the Biopharma Day at NCM Boston. The session’s title was “NESSI-Seq: novel cfDNA methylation assays for biomarker discovery and precision medicine.” Pollard described Wasatch BioLabs as a high-throughput nanopore sequencing lab. NESSI-Seq is a methylation analysis method. They developed a method to provide more methylation information than the […]
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Tonight, I continued watching the Oxford Nanopore Technologies session from ASM Microbe 2024. The title of the session was “Celebrating a decade of DNA discoveries: 10 years of the MinION in microbiology.”Before the second speaker, the live sequencing demo was shown on the screen. The team was sequencing a microbe and had the audience guess […]
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A Nanopore-based Approach to Detect and Analyze Repeat Anomalies

Hagar Mor-Shaked from the Hadassah Medical Organization and Faculty of Medicine, Hebrew University of Jerusalem, presented a lightning talk at London Calling 2023. The title of the session is “Pathological short tandem repeats analysis by long-read sequencing in affected individuals.” They were also an employee of the Geneyx company that did genomic analysis. Mor-Shaked spoke […]
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Mobile Metagenomics with MARTi

Richard Leggett from Earlham Institute in the UK presented at London Calling 2021 on “Real-time metagenomics with MARTi.” MARTi stands for “Metagenomic Analysis in Real Time.” They developed this workflow for rapid diagnostics. Once they developed MARTi, Leggett and the team realized there are numerous applications for “in situ sequencing.” NanoOK has been available but […]
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A Guide to Structural Variation Analysis

Today I watched the Knowledge Exchange session from Nanopore Learning about “A beginner’s guide to structural variation analysis: from discovery to basic annotation.” Steven Rudd, a bioinformatics expert at Oxford Nanopore Technologies, shared a couple of slides and then explored the structural variation tutorial. A structural variant (SV), Rudd said, is typically considered as “a […]
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Overview of EPI2ME Labs Workflows

The Nanopore Learning course on Human Genome Sequencing and Analysis had a short video introducing the EPI2ME Labs workflows. Anthony Doran, a Technical Applications Scientist in Bioinformatics at Oxford Nanopore Technologies, spoke about the bioinformatics workflows available in EPI2ME Labs. Workflows were defined as multistep pipelines that may include many software and files at different […]
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