Discovery is easy with automatic genome annotations
Automatically annotate a new genome based on existing patterns and annotations in public or local databases including annotating ORFs as hypothetical genes based on these patterns and queries against NCBI.
- Annotate sequences with ORFs or predict genes with Glimmer
- Search for motifs by copying and pasting sequences
- Similarity based annotations (large database of sequences)
- Transfer annotations using an alignment
- Detect tandem repeats with Phobos
Powerful SNP detection and variant calling
Navigate reads in a beautiful browser. Easily identify, examine and resolve disagreements manually in the sequence viewer or quickly annotate variations on larger contigs. This feature can be configured to
- Screen read errors by finding disagreements above a minimum threshold.
- Find disagreements only in coding regions
- Identify the effect of variations on protein translations, including those where only the first and third positions in a codon vary
- Calculate the probability of a SNP being correct
- Eliminate SNPs with a high strand bias
- Export your variants to csv
- Search and annotate short structural variations such short tandem repeats (STRs) and insertion and deletion events (InDels)
Real-time sequence prediction
In a few clicks you can find so much about your sequences including;
- DNA translation – Translate and complement alongside your nucleotide sequences. Translate in any frame or all 6 frames at once or just translate the annotation or selection that you’re interested in.
- Consensus Sequence – Predict consensus sequences according to your choice of identity schemes including “consensus by quality” on chromatogram data which chooses the best base call automatically
- DNA sequences – Predict identity, read coverage, numerous statistics on base frequencies, residue frequencies, CpG islands and more
- Protein sequences – Predict molecular weight, isoelectric point, hydrophobicity, transmembrane regions, coiled coil regions, amino acid charge and more
Automatic Annotation in Geneious
Pairwise Alignment – Develop the skills needed to align pairs of DNA and protein sequences with Geneious using dotplots and alignment algorithms.
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.
More Geneious Prime Features
Assembly and Mapping – De novo assembly or reference mapping using industry leading algorithms, including TopHat and Velvet.
NGS Visualization and Analysis – Comprehensive analysis of data, including genome browser, contig visualization, SNP calling, and RNA-Seq expression analysis.
Alignment – Perform pairwise and multiple alignments of DNA or protein using trusted algorithms, including MAFFT and ClustalW.
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.