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NGS and Sanger Sequence Analysis

Watch videos and complete tutorials to learn how to perform downstream analyses including expression analysis, amplicon metagenomics and microsatellite analysis.

How To Find Variants – Sanger Sequencing

INSIDE THE VIDEO
The find variations and SNPs tool can be used to automatically identify disagreements and can be run on multiple contigs at once.

LEARN HOW TO:

  • Set parameters for when SNPs are called
  • Easily move between variants and view information about the SNPs
  • For CDS annotations, see how the SNP will affect the protein
  • View and export polymorphisms from an annotations table

Metagenomics: Preprocessing of NGS Amplicon Data

INSIDE THE VIDEO
Assemble, filter and analyze an NGS amplicon metagenomic data set in Geneious Prime in this video series.

LEARN HOW TO:

  • Pre-process NGS amplicon data
  • Trim and merge paired reads

Metagenomics: Clustering and Batch Blasting Amplicon Data

INSIDE THE VIDEO
Assemble, filter and analyze an NGS amplicon metagenomic data set in Geneious Prime in this video series.

LEARN HOW TO:

  • Cluster and batch blast amplicon data

Metagenomics: Creating a Taxonomy Database

INSIDE THE VIDEO
Assemble, filter and analyze an NGS amplicon metagenomic data set in Geneious Prime in this video series.

LEARN HOW TO:

  • Create a taxonomy database

Metagenomics: Classifying Amplicon Data with the Sequence Classifier

INSIDE THE VIDEO
Assemble, filter and analyze an NGS amplicon metagenomic data set in Geneious Prime in this video series.

LEARN HOW TO:

  • Classify amplicon data with the Sequence Classifier

Metagenomics: Classifying Sequences Using the 16S Biodiversity Tool

INSIDE THE VIDEO
Assemble, filter and analyze an NGS amplicon metagenomic data set in Geneious Prime in this video series.

LEARN HOW TO:

  • Classify sequences using the 16S biodiversity tool

TUTORIALS

Analysis - Expression
Expression Analysis

Learn how to calculate normalized expression measures from RNA-Seq data.

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Analysis - DEseq2
Expression Analysis with DESeq2

Learn how to use DESeq2 in Geneious to compare expression levels for two sample conditions with replicates.

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Analysis - Annotations
Transferring Annotations

Learn how to quickly annotate a sequence by transferring annotations from related sequences.

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Analysis - Microsatellites
Microsatellites

Learn how to use the Microsatellite plugin for Geneious to fit a ladder, call peaks, bin alleles and produce a table of genotypes.

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Analysis - 3d structures
3D Structures

Explore the controls in the Geneious 3D structure viewer and learn how to use it to visualize active sites in a protein structure.

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Analysis - Metagenomics
Amplicon Metagenomics

Learn how to assemble, filtering and analyze an NGS metagenomic data set in Geneious Prime.

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Analysis - Sequence Classifier
Case Study – Sequence Classifier

Use the Sequence Classifier to classify mitochondrial sequences obtained from subfossil bones.

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Analysis - dna forensics
Case Study – DNA Forensics

Edit and analyze some “raw” DNA sequence data to determine the origin of a biological sample from a wildlife forensic case.

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