De Novo Assembly in Geneious Prime

Course Content

How to do De Novo Assembly of NGS Reads

Learn how to configure and run a de novo assembly of paired-end NGS reads in Geneious Prime. This video covers sensitivity settings, advanced parameters, and how to assess assembly quality using coverage statistics and the insert size histogram.
LENGTH 4 minutes

How to Normalize Your Data in Geneious Prime

Learn when and how to normalize NGS reads before de novo assembly in Geneious Prime. This video covers the error correct and normalize tool, appropriate use cases, and how normalization reduces compute time while preserving assembly accuracy.
LENGTH 3 Minutes

Circular Contig Assembly

Create circular contigs with the Geneious de novo assembler for a more accurate assembly of circular genomes.
LENGTH 1 minute

Recommended Resources

Plugin - BBDuk Trimmer

Download the plugin for quality trimming and filtering your sequences.

Plugin - MAFFT

Download the plugin for fast and accurate multiple sequence alignment with MAFFT

Geneious de novo assembly advisor decision tree & validation table

Use the decision tree to identify the most appropriate assembly algorithm for your data.

Manual for De Novo Assembly

A guide to using the de novo assembly tools in Geneious.

More Geneious Academy

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Align your chromatograms to a reference sequence, find variants and verify sequences.
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