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Course Content
Calling SNPs
INSIDE THE VIDEO
How to use the Geneious variant finder to find SNPs in mapped data and set the parameters to filter out sequencing errors.
LENGTH
2 minutes
Comparing SNPs
INSIDE THE VIDEO
How to filter SNPs based on their overlap with another annotation track or annotation type and filter out SNPs in regions of low coverage.
LENGTH
2 minutes
Recommended Resources
Can I call SNPs on individual sequences aligned to a reference?
How to call SNPs on different assmeblies and alignments.
Manual for Finding Variations/SNPs
A guide to using the Find Variations/SNPs feature in Geneious.
Plugin - BBDuk Trimmer
Download the plugin for quality trimming and filtering your sequences.
Which map to reference assembly algorithm is best for my data?
Advantages and disadvantages of different map to reference algorithms.
More Geneious Academy
TUTORIALMapping and SNP Calling
With this practical exercise, perform a reference assembly with NGS data and call SNPs on the assembled contig.
VIDEO SERIESExpression Analysis
Calculate and compare normalized expression measures from RNA-Seq data using the Geneious expression analysis tool.
VIDEO SERIESDe Novo Assembly
Watch the series and learn how to perform a de novo assembly of short-read NGS data and assemble circular contigs.
VIDEO SERIESMetagenomics Analysis
In this in-depth video series learn how to assemble, filter and analyze an NGS amplicon metagenomic data set.
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