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UGENE podcast #41: Whats new in UGENE 1.14

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Published on Aug 1, 2014

Important changes in 1.14 release include:
• Help system:
- Help buttons were added into all UGENE dialogs.
- The documentation was moved to the Atlassian Confluence system, this makes it easier to search for required information in it.

• Shared storage: sharing of bioinformatics data in a lab. For details, see this page.

• Alignment Editor:
- Overview for a multiple alignment was added, a lot of configuration options are available.
- A multiple alignment consensus can now be exported.

• Phylogenetic Trees:
- PhyML Maximum Likelihood was integrated.
- It is now possible to re-root a tree.

• Circular View and circular sequences: a possibility to mark a nucleotide sequence as circular was added. This mark affects how a pattern is searched in the sequence – results located over the end-start junction of it are also found.

• Plasmid features: auto-annotation of the plasmid features like promoters, regulatory regions, primers, etc.

• Export images: exporting of images was improved - multiple alignments, circular molecules, etc.

• NGS:
- BWA-MEM tool for aligning short reads was integrated. The tool is available in the GUI dialog and in the Workflow Designer.
- Different workflow elements for sorting, merging and filtering and trimming of NGS data were added - BAM and FASTQ files.

• UGENE Public Storage: the storage can be remotely accessed from any UGENE instance. It contains common genomes and hundreds of plasmids.

• A splash screen was added on the UGENE startup.

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