Geneious trace viewer
Developer: Biomatters
Supported platforms: Windows 7, 8 and 10, CentOS Redhat 6 or higher, Ubuntu and MacOS 10.8 – 10.12.
Download: https://www.geneious.com/
Features
View Quality scores
The quality scores can be toggled on or off and are displayed at the bottom of the trace when the mouse is hovered over a peak. In chromaogram view, the text size of the basecall sequence represents the quality for that particular basecall. The larger the text the higher the quality of the basecall.
View raw data
No. There is not way to view the raw data of a trace through Geneious.
Assembly
Within Geneious you have the ability to align and assemble through multiple platforms such as a MUSCLE , ClustalW and a Geneious alignment.
Input file formats
.ab1 .SCF, FASTA, FASTQ, txt and Geneious.
Output file formats
Geneious, FASTA, Genbank, ab1, FASTQ and Qual.
Trimming
Yes, within Geneious you have the ability to trim the 3′ and or 5′ end of the trace based on quality, vector sequence, primer sequence or ambiguities.
Integrated Blast
Yes, BLAST is fully integrated with Geneious, you don’t have to leave the program to get your results.
Open multiple windows
Only 1 window can be opened at a time, but you can have multiple projects within the one window.
Edit bases
Yes you can edit the sequence within Geneious.
ABI limits (regions outside of clear range region are displayed in grey)
No, this feature is not available in Geneious.
Other functions
The latest release of Geneious has seen the introduction of tools for molecular cloning such as Gibson assembly and gateway assembly. Primer and plasmid design have been simplified through automatic locating of; ORF, CRISPR sites and specific motifs. Gene prediction through Glimmer has also been supported to help aid in automatic annotation.
Cost
Geneious starts at $500 for a student and up to $3,150 for a commercial personal plan.
Comments
Geneious has been designed to be a one stop shop for all your bioinformatic tools. However, despite all the features and tools that are available in Geneious, it doesn’t feel too advanced. Novice scientists can start learning through this program and experienced bio pharmaceuticals companies can use it to speed up their workflow. The DNA visualizers are engaging and the tools easy to find.
