RNA-Seq Blog Transcriptome Research & Industry News
Ann Arbor, MI – Gene Codes Corporation announces the release of Sequencher 5.3 , DNA Sequence and Analysis Software. The latest release of Sequencher highlights Gene Codes’ goal of providing researchers with powerful, easy to use DNA analysis software tools. Sequencher 5.3 adds RNA-Seq analysis to its long list of DNA sequence analysis features, as well as improvements to Sequencher Connections, its newest architecture for DNA sequence analysis.
The most notable new addition to Sequencher 5.3 incorporates the Cufflinks algorithm suite for RNA-Seq analysis. This adds to Sequencher’s lineup of NGS plugins that includes GSNAP, BWA, and MAQ for reference-guided alignment and Velvet for de novo DNA assembly. Sequencher 5.3 also features visualization tools for differential expression analysis. Users can view Volcano plots, Bar charts, and Scatter plots that are linked to their underlying data.
“As with the other NGS tools we feature, Cufflinks is wrapped in Sequencher’s easy-to-use GUI, making the normally challenging command-line process easy,” said Howard Cash, CEO at Gene Codes.
Another big change in Sequencher 5.3 is the enhancements to Sequencher Connections. Introduced in Sequencher 5.2, Sequencher Connections is a new interface that allows users to run multiple analyses in parallel by setting up different channels. Each channel is a different analysis and can include BLAST searches (either of NCBI’s databases or local databases), Primer-BLAST searches, or MUSCLE alignments with different parameters. In Sequencher 5.3, users can customize their session names and analyses. With sessions now saved with the project file, they can re-run analyses at any time with new parameters. The Schematic makes it easy to compare BLAST and Primer-BLAST results in a single consolidated graphic.
“We felt that Sequencher Connections, with its ability to run multiple analyses in parallel was a real game changer. With these enhancements in 5.3, Connections will be an even more valuable tool for researchers,” said Michelle Ginsberg, PhD, Gene Codes’ Product Manager.
The improvements to Sequencher Connections and the addition of RNA-Seq tools reflect Gene Codes goals.
“We strive to give researchers the tools they want and provide them in a way that makes it easier to get the results,” said Ginsberg. “Connections provides a platform for future services based on customer feedback. The RNA-Seq tools were added because many users expressed the desire to do RNA-Seq analysis using the Sequencher platform that they were so familiar with.”
Click HERE for a brochure on Sequencher 5.3.
Click HERE to download Sequencher 5.3.
About Gene Codes Corporation
Gene Codes Corporation is an international bioinformatics software firm. Gene Codes is based in Ann Arbor, Michigan, with additional offices in New York City and Brighton, England. Gene Codes’ flagship product is Sequencher, DNA Sequence Analysis Software. Gene Codes success is built on customer-driven product development, combining the latest programming techniques, rigorous quality control, and an open dialogue with customers to produce products of the utmost usability and industry relevance. http://www.genecodes.com
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