Map to Reference

Use the map to reference tool to map next-generation sequencing data against a reference, and assemble coronavirus genomes.

INSIDE THE VIDEO

Select a reference sequence, choose a mapping algorithm, set the sensitivity and map to reference.

LENGTH

3 minutes

INSIDE THE VIDEO

View the consensus sequence and quickly identify high or low coverage regions using the coverage graph.

LENGTH

3 minutes

Recommended Resources

Download the plugin for quality trimming and filtering your sequences.

Advantages and disadvantages of different map to reference algorithms.

A guide to using the map to reference tools in Geneious.

The difference between Pairwise/Multiple alignment, de novo Assembly, and Map to Reference.

With this practical exercise, perform a reference assembly with NGS data and call SNPs on the assembled contig.

Watch the series and learn how to perform a de novo assembly of short-read NGS data and assemble circular contigs.

Watch how to perform multiple alignments and assess levels of homology among sequences before constructing a phylogeny.

Learn to align your chromatograms to a reference sequence, find variants and verify sequences in this video series.

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