Built-in likelihood, distance and Bayesian phylogenetic tree building methods
The interactive distance matrix viewer allows you to rapidly calculate meaningful statistics for phylogenetics analysis.
Phylogenetic tree building and analyzing without juggling files
Simply select any alignment in Geneious Prime and your choice of algorithm to generate your phylogenetic tree with simple one click methods.
Your choice of phylogenetic tree building algorithms
- Neighbor Joining – Use the fast and simple neighbor-joining methodology to build yourself a guide tree for large numbers of taxa in seconds
- UPGMA – Simple and fast hierarchical clustering method for phylogenetic reconstruction
- MrBayes – For Bayesian estimation of phylogenies, Geneious incorporates the MrBayes plugin which can be run on the local machine.
- PAUP* – Launch the PAUP* plugin from inside Geneious through our streamlined GUI interface to perform Maximum Parsimony, Maximum LIkelihood. You must own or purchase a copy of PAUP* to use this plugin
- PhyML – Harness the fastest implementation of maximum likelihood with the PhyML plugin
- GARLI- Genetic Algorithm for Rapid Likelihood Inference
- RAxML- Randomized Axelerated Maximum Likelihood
- FastTree – Approximately-maximum-likelihood phylogenetic trees from alignments of nucleotide or protein sequences
Export your phylogenetic artwork and publish it
Manipulate the display settings to customize branch labels, node labels, end labels, tree shape, tree scale or color the clades to get your tree looking exactly the way you’d need it to. Once your tree is built save it to a high quality vector format like svg, pdf or eps for publication or print it so you can stick it on the wall.
Phylogenetics Trees – Use Geneious Prime to analyze the evolutionary origins of human immunodeficiency viruses (HIVs) using molecular phylogenetic tools.
Plant Molecular Evolution – Annotate plant DNA sequences using BLAST and multiple alignment, then learn how to read a phylogenetic tree to explore genetic distance.
Creating SNP Trees – An overview of how to generate a SNPtree in Geneious Prime using next generation sequencing data from Ebola virus isolates.
Identification of Zika Virus – Explore a pipeline which allows accurate identification and analysis of low concentrations of ZIKV from high-throughput metagenomic data.
More Geneious Prime Features
Alignment – Perform pairwise and multiple alignments of DNA or protein using trusted algorithms, including MAFFT and ClustalW.
Assembly and Mapping – De novo assembly or reference mapping using industry leading algorithms, including TopHat and Velvet.
Analysis and Annotation – Trim, assemble, annotate and view Sanger sequencing trace files
Molecular Cloning – View plasmid maps, automatically annotate vectors, find restriction sites; digest, ligate, and perform Golden Gate, Gibson, and Gateway cloning.
BLAST / NCBI – Connect to NCBI and PubMed, submit sequences directly to GenBank, BLAST sequences and search your own database.
Import Data – Import and convert common file types as well as their annotations and notes with a simple drag and drop
I have found Geneious to be one of the most intuitive and powerful sequence analysis programs that I have used in all my years working in the molecular biology field. Thanks for making my life so much easier.
Geneious is an absolutely beautiful package to work with. We love it and we are telling everyone about it.
This program is wonderful! I was desperately looking for a software program that would make analyzing my sequencing data less painful. Thank you for developing a quality, user-friendly program. The interface is great!
Geneious is paramount in my research so I can’t be without it for too long.
The combination of powerful analytic features, intuitive navigation and file organization, and the responsiveness that representatives have shown to the inclusion of new functions has made us big fans of this software.
Geneious is a great software… I just want to express my appreciation to Biomatters to come up with such good product.
For many years I’ve wanted a friendly, menu-driven interface to our Glimmer program, but my research group has never had the resources available to build one. The Geneious Glimmer interface is terrific; it will allow any scientist to find genes in almost any bacterial, viral, or archaeal sequence, without requiring background expertise in Unix command-line programs. I’m also very pleased that Geneious makes Glimmer available across multiple computer platforms, including Windows and Mac.
We’ve been using our Geneious licenses a lot and really like the software. We’ve written several plug-ins ourselves and are using it more and more to analyze our data.
It’s not just about the buttons. From a user’s perspective, Phobos generates annotations, and Geneious handles annotations beautifully. The integration was obvious! And from a technical perspective it was easy to achieve, because it was simple to parse the outputs from Phobos into repeat annotations for the Geneious interface.
TopHat is a robust tool, but it was designed with experienced bioinformatics scientists in mind. Geneious makes TopHat accessible to many more users through the same powerful, intuitive user interface they have with other Geneious analysis tasks.