3 April 2012
Agilent Technologies has introduced GeneSpring 12.0, a major expansion of its bioinformatics software. With the new release, GeneSpring users can now analyse next-generation sequencing (NGS) data and conduct joint analysis at the pathway level across multiple ‘omics’ platforms in a familiar software environment.
The NGS module was designed and tested for use with Agilent's SureSelect target-enrichment platform as well as un-targeted next-gen sequencing experiments. Within the module, QC manager provides tools for graphical target enrichment, base quality, mapping and alignment QC. DNA-SEQ workflows in the GeneSpring NGS module include tools for identifying and profiling known and novel variants, annotating SNPs, predicting SNP effects and detecting structural variants. Furthermore, RNA-SEQ workflows support mRNA profiling in absolute and relative space, such as detection and differential expression analysis of genes and splice variants. This includes novel gene and exon detection, gene fusion analysis and sophisticated statistical and pathway analysis tools.
Customisation capabilities now include enhanced integration of the Jython and R programming languages. Using the embedded scripting editor, bioinformatics scientists can write, execute and save their own algorithms and workflows in the GeneSpring 12.0 programming framework. GeneSpring 12.0 is also integrated with Agilent's free eArray portal, enabling users to custom-design experiments through an easy-to-use interface. Developed in partnership with Strand Scientific Intelligence, the software is powered by Strand's Avadis platform, which is designed to enable scientists to simplify and solve complex life science challenges.