scaffolds

High-Quality Genome Assembly Tools by Oxford Nanopore

We often use Oxford nanopore reads for de novo assembly of genomes and plasmids. Sean Mckenzie, Associate Director of Genomic Applications Bioinformatics with Oxford Nanopore Technologies, provided an update on assembly performance. They described de novo assembly as “the process of reconstructing an organism’s genome sequence from a set of genomic sequencing reads.” There are […]
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Assembly of A Model of Plant Evolution

Issa Diop from the University of Zurich in Switzerland presented at London Calling 2021 on “Chromosomal-scale assembly of the liverwort Marchantia paleacea.” Diop discussed chloroplasts and endosymbionts before introducing Marchantia as a model of plant evolution. Marchantia has a haploid-dominant life cycle with a genome size of 280 Mbp. There are eight autosomes and 1 […]
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Assembling Redwoods, Giant Sequoia, and a Fungus

“Sequencing and assembling the mega-genomes of mega-trees: the giant sequoia and coast redwood genomes” is the title of the session Steven Salzberg from Johns Hopkins University presented. I was curious why this session was classified as “Metagenomics.” Salzberg works on several different organisms. The project’s first results were released in April 2019, describing the genome […]
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EPI2ME Workflows for ONT Data Analyses

Dilrini De Silva is a Field Applications Scientist in Bioinformatics for the EMEAI Region with Oxford Nanopore Technologies. De Silva presented a Masterclass at London Calling 2023 entitled “How to take your data analysis further.” This Masterclass focused on typical downstream analysis for several applications including genome assembly, variants, methylation, transcriptomics, and metagenome analysis. De […]
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