LASERGENE 18 RELEASE NOTES
We are thrilled to announce that Lasergene 18 is now available to download.
This release brings significant new features and improved functionality, including a major update to GenVision Pro, our application for visualizing and analyzing genomic data across multiple samples. New capabilities in Lasergene 18 include:
Phased Variant Analysis
Lasergene Genomics now includes a diploid phasing algorithm for analyzing long-read data sets as large as the complete human genome.
- Begin the phased haplotype workflow in SeqMan NGen simply by selecting a new variant detection option.
- View phased/unphased regions across the whole genome following assembly in the new Genome View in GenVision Pro.
- Visualize and analyze phased aligned reads, phased blocks, phasing consistency, and phased variants using several new tracks and options in GenVision Pro.
- Export phased consensus blocks to get the maternal and paternal haploid sequences for a gene of interest.
Variant Comparison Across Multiple Experiments
GenVision Pro now offers the capability to comprehensively compare variants from multiple experiments.
- Import SeqMan NGen assemblies, BAM, and/or VCF files into GenVision Pro.
- Filter variants based on a Venn diagram, on single or multiple baseline controls, on paired samples (e.g., normal vs. tumor), on the minimum percentage of samples or pairs containing the variant, and many other options. Save a filter or set it as the default filter for future projects.
- View Variant Annotation Database information for human samples assembled in SeqMan NGen.
- Create sets of variants and compare those with a Venn diagram, union, intersection, or a minimum percentage of sets containing each variant.
- Export variants and sets of variants as CSV or tab-delimited text files.
Gene Set Enrichment Analysis (GSEA)
GSEA is a specialized version of the RNA-Seq differential expression workflow that focuses on groups of genes that share some commonality, such as regulation, chromosomal location, or biological function.
- Access the GSEA computational method in SeqMan NGen when criteria for DESEQ2 or EdgeR analysis have been met.
- Learn whether a predefined set of genes shows statistically significant differences between two biological states (e.g., phenotypes).
- Choose any of 31 human, 19 mouse, C. elegans, and yeast analysis options.
- View the output in a specialized bubble plot that lists genes from the chosen analysis set that are also differentially expressed, and in clustering plots showing up-regulated and down-regulated gene sets.
Search Sequences in a Custom Local Database
GenVision Pro, Protean 3D, SeqMan Ultra, and MegAlign Pro now all offer the ability to create secure local sequence databases for local BLAST searches.
- Upload local files or import sequences from NCBI, with over 30 databases to choose from.
- Merge, expand, rename, and/or delete local databases using the Local Database Manager.
- Local searches are 5–25x faster than online searches.
Golden Gate Cloning
SeqBuilder Pro now supports Golden Gate virtual cloning, for precise and scarless clones.
- Set up the clone with a simple wizard that detects likely failures and provides helpful feedback.
- View features for all components of the clone.
- Effortlessly remove unwanted restriction sites (domestication).
Phylogenetic Trees Built with IQ Tree
MegAlign Pro now includes the IQ Tree algorithm for constructing phylogenetic trees. This widely-used maximum likelihood method is fast, accurate, and supports bootstrapping.
- Select IQ-Tree from the 4 available methods for phylogeny computation.
- Generate and compare multiple trees created by different methods.
- Customize and export your phylogenetic tree(s) for publication or collaboration.
Upcoming Webinars
Maximizing insights from multi-sample variant analysis
November 13, 2024 at 11:00 AM CDT
Essential Clone Design Techniques
January 22, 2025 at 11:00 AM CST
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