Geneious Prime

NGS Visualization and Analysis

Beautiful visualization of annotated genomes and assemblies, powerful variant calling and RNA-Seq expression analysis.

Effortless NGS Visualization and Navigation

With just a click, get the visualization you need for the next generation sequencing data you have. Annotated genomes, circular genomes, mapped reads, contigs are all displayed in our highly customizable sequence view. Choose coloring schemes, graphs and tracks of additional annotations to display, then use dynamic annotation searching and location jumping to find what you’re looking for.

Powerful SNP Variants Analysis

Find SNP/Variants with either the versatile Geneious algorithm or well known FreeBayes. If you have variant calls from an external pipeline or provider, simply drag in a VCF. Identify novel variants by programmatic comparison with known variants or sort and filter using our dynamic tabular view then see the genomic context by switching to the synchronized sequence view.

Simple RNA-Seq Expression Analysis

Calculate expression levels from mapped reads then perform pairwise comparison between samples to identify differentially expressed genes. Without any expertise in the statistical programming language, R, use the industry standard DESeq2 package to compare expression between two conditions, each with replicate samples.

Switch to the PCA Plot tab to check the quality of your data using principal component analysis then switch to the interactive volcano plot to spot genes of interest. After selecting a gene in the volcano plot you can jump straight to it in the sequence view where all genes have heatmap coloring based on differential expression.

Amplicon Metagenomics

Assemble filter and analyze metagenomic datasets in Geneious Prime. Amplicon data can be classified using the Sequence Classifier or the 16S Biodiversity Tool.

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Assembly and Mapping

De novo assembly or reference mapping using industry leading algorithms, including TopHat and Velvet.

Sanger Sequencing

Trim, assemble, and view Sanger sequencing trace files. Powerful SNP detection and variant calling.

Phylogenetic Tree Building

Build phylogenetic trees using peer-reviewed algorithms, including RAxML and PAUP*

Import Data

Import and convert common file types as well as their annotations and notes with a simple drag and drop

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