Date: 3/21/24

Version Affected: Lasergene 17.5 and earlier (when used on or after 3/21/2024)

Version Fixed: Lasergene 17.6

Issue: With the release of Lasergene 17.6 on 3/21/2024, we updated Bioconductor to the latest version. The new version uses a Bayesian shrinkage statistic, “lfcShrink,” and eliminates use of the “Wald stat” that was used by Bioconductor at the time Lasergene 17.5 and earlier were released. (Read Bioconductor’s response to a user about this substitution).

This update impacts anyone that continues using SeqMan NGen 17.5 or earlier to assemble RNA-Seq data using DESeq2 normalization. The SeqMan NGen assembly will still run to completion, but a warning will appear in the Assembly Log. In addition, an attempt to open the assembly in ArrayStar will result in a warning message that the stat value is missing and the project needs to be reassembled.

Resolution: The preferred resolution is to upgrade to Lasergene 17.6 or later. To install the latest version of Lasergene, go to the My Licenses page of our website. Alternatively, if a normalization method other than DESeq2 is an option for you, you can continue performing RNA-Seq assemblies using Lasergene 17.5 or earlier. If your situation prevents you from using either of these resolutions, please contact DNASTAR at 866-511-5090 or support@dnastar.com.