Geneious
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Application data |
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| Created by | Biomatters Limited |
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| Biological application domain(s) | Phylogenetics, Sequence analysis, Sequence assembly (de novo assembly), Genomics, Population genetics, Metagenomics, Structural variation, RNA-Seq, Epigenomics |
| Principal bioinformatics method(s) | Sequence alignment, Sequence assembly, Sequence assembly validation, Annotation, Genome visualisation, DNA barcoding, Read mapping, Visualisation, Sequence motif discovery, Variant calling |
| Technology | Sanger, Illumina, ABI SOLiD, 454 |
| Created at | Auckland, New Zealand |
| Maintained? | Yes |
| Input format(s) | FASTA, FASTQ, GenBank, SAM, ELAND, CSFASTA, CSQUAL |
| Programming language(s) | Java |
| Licence | Commercial |
| Operating system(s) | Windows, Mac OS X, Linux, Solaris |
Summary: Search, organize and analyze genomic and protein information of any size via desktop program that provides publication ready images to enhance the impact of your research.
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Scientists, researchers and students are able to search, organize and analyze genomic and protein information of any size via a single powerful desktop program that provides publication ready images to enhance the impact of your research.
With an email-like interface for easy navigation and extremely intuitive usability, Geneious Pro provides an intelligent central platform for biologists using all the major industry-leading algorithms and applications in bioinformatic research. Complex data such as entire bacterial genomes or human chromosomes can be stored, visualized and analyzed using a single desktop application that unites pipelines and tools and ensures analyses are easily repeatable.
Features
Geneious comes in a Basic version that is free for academic use, and a commercial Pro version with added features. Geneious bundles various bioinformatics tools under one hood with an easy-to-use email-client-like interface. See the release notes for a full list of features.
- Fast de novo and reference assembly
- Sequence searching (NCBI, PFam, Uniprot, BLAST) and publication searching (PubMed, Entrez)
- Automated search agents and smart agents - smart agents can be trained to search for other related documents
- Sequence alignment and sequence viewing - BLAST, MUSCLE, translation alignment, ClustalW on Greenbutton super-computer
- Motif search and open reading frame prediction
- Genome and protein annotations
- Phylogenetic tree building UPGMA, Neighbour joining with bootstrapping and consensus trees, PAUP* and PhyML plugin
- Contig assembly and chromatogram editing
- in silico cloning and Gateway cloning - Restriction digest, insert and ligate into vector, add attB sites, PB reaction, LR reaction
- PCR Primer design - designing and testing, degenerate primers, mismatches and multiple primer searching, implementation of Primer3
- Protein structure viewer
- Collaborate and share data over the internet
- Teach bioinformatics - Create tutorials with direct links to material in Geneious
- Public API to develop free bioinformatics plugin by the community
- Sassafras K2 license server support
- Various standard bioinformatics applications such as ClustalW, MrBayes, EMBOSS, Mauve, MUSCLE and PAUP*
Innovations that set Geneious Pro apart
- Next Generation Full Genome Assembly - Geneious Pro can seamlessly assemble regular or paired-end genomic data generated by Sanger, 454, SOLiD® and Solexa® sequencing technologies.
- Superb Visualisations - Geneious Pro is the only bioinformatics application that provides users with visualizations that make work seem like leisure
- GRID Computing - Geneious Pro is the only commercial bioinformatics application that allows you to harness the power of grid computing for Mr. Bayes and ClustalW through its world-first Greenbutton® Technology.
- Smart Agents - A unique feature of Geneious Pro enables researchers to train smart agents to seek, retrieve and sort data specific to user requirements from private and public databases such as NCBI, BLAST, Pfam and UniProt. Researchers can spend their time analyzing relevant data, not sifting and sorting.
- Secure Collaboration - A world first in science software, researchers can work together within Geneious Pro, share files and information on a project, and chat securely. This unique feature enables Geneious Pro researchers to collaborate worldwide on critical areas of discovery.
- Education Tutorials - Teach or learn bioinformatics interactively. Students are guided through analysis and exercises with all the data and tools just a click away. Geneious Pro also allows teachers to create their own tutorials using live links to data, and communicate with students using the built-in collaboration features.
- Plugin Architecture - The public API allows any developer to leverage the power of the Geneious Pro framework and extend it to any customized function.
Links
- Geneious Homepage [ edit link ]
- Geneious [ edit link ]
References
To add a reference for Geneious, enter the PubMed ID in the field below and click 'Add'.
Search for "Geneious" in the SEQanswers forum / BioStar or:
| Web Search | Wiki Sites | Scientific |
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