workflows

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EPI2ME Labs as a Learning Platform

Tonight I started an EPI2ME Metagenomics workflow to analyze our two 16S runs for the metagenomics class. I also watched the Nanopore Learning Human Genome Sequencing and Analysis course video on “Data Analysis: EPI2ME Labs Introduction.” Anthony Doran, a member of the Technical Services Team with Oxford Nanopore Technologies, described EPI2ME Labs as a “point-and-click” […]
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Data Analysis Solutions from ONT

The next lesson in the Nanopore Learning course for Human genome sequencing and analysis I watched was the introduction to data analysis solutions video. The speaker, Anthony Doran, shared a graphic with the different bioinformatics options provided by Oxford Nanopore. EPI2ME is the real-time cloud-based platform. There are several workflows for quality control, alignment, and […]
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Real-time Analysis with EPI2ME

Tonight I watched another video from the Nanopore Learning course on Human Genome Sequencing and Analysis. This session was an introduction to real-time analysis. Sandra Guerra, a member of the Technical Services Specialist, introduced the tools for real-time data analysis. Guerra described the process of Nanopore DNA/RNA sequencing. They noted that Nanopore technologies and devices […]
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MetaQUAST, BUSCO, CheckM, and more Bandage!

Tim Walker explained quality control of metagenomic assemblies as part of the Nanopore Learning Metagenomics course. They spoke about the metrics to determine confidence in assembly model and the information it gives. Walker stated: “… what is truth, and what is artifact” to emphasize the use of metrics for metagenomic assembly quality control. Walker explained […]
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EPI2ME Labs and EPI2ME One

Chris Wright, Senior Director of Customer Bioinformatics at Oxford Nanopore Technologies, presented at London Calling 2023 on “Leveraging Nextflow for the analysis of anything, anywhere, by anyone.” I have used Nextflow and EPI2ME Labs for maybe two years and enjoyed the easy-to-use workflows that are available. Wright focuses on delivering bioinformatics by packaging algorithms to […]
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Midnight and ARTIC SARS-CoV-2 Protocol Comparisons

Julie Karl & Robert Maddox from the University of Wisconsin-Madison presented at the Nanopore Community Meeting 2021 about “SARS-CoV-2 sequencing: on the midnight train to throughput.” They started with statistics from November 11, 2021 about global COVID-19 cases, including data from GISAID. The GISAID graph showed which countries had contributed to the database. Karl shared […]
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