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-
-What's new ?
-
-What's new ?
-Jalview Version 2.1
-The multiple sequence alignment program MAFFT
- is available from the default Web Service list.
-The sequence feature retrieval system using DBFetch from EBI has been replaced
- with DAS Feature fetching capabilities.
-Hide sequences and columns
-Export Annotations and Features
-GFF file reading / writing
-Associate structures with sequences from local PDB files
-Add sequences to exisiting alignment
-Recently opened files / URL lists
-Applet can launch the full application
-Applet has transparency for features (Java 1.2 required)
-Applet has user defined colours parameter
-
-Issues Resolved
-Redundancy Panel reinstalled in the Applet
-Monospaced font - EPS / rescaling bug fixed
-Annotation files with sequence references bug fixed
-
-See the Release History page for details of all
- new features and resolved issues.
-
-
+
+
+
+What's new ?
+
+
+
+ What's new ?
+
+
+ Jalview 2.10 is the next major release in the Jalview 2 series. Full
+ details are in the Jalview
+ 2.10 Release Notes, but the highlights are below.
+
+
+ Highlights in Jalview 2.10
+
+ - Ensembl sequence fetcher. Annotated Genes,
+ transcripts and proteins can be retrieved via Jalview's new Ensembl REST
+ client. Support for import of Ensembl data also allows:
+
+ - Sequence variant data. Jalview
+ propagates variant annotation imported via Ensembl onto
+ protein products, complete with associated metadata such as
+ clinical significance.
+ - Aligned locus view. Transcripts
+ retrieved for a gene identifier via the Ensembl or
+ EnsemblGenomes sequence databases are automatically aligned to
+ their reference genome.
+
+ - Working with structures.
+
+ - More accurate structure mappings.
+ Jalview now utilises the PDBe's SIFTS database (at EMBL-EBI)
+ to match structures
+ to UniProt sequences, even for structures containing
+ multiple copies of a sequence.
+ - Import structures as mmCIF. Jalview
+ now downloads data from the EMBL-EBI's PDBe site as mmCIF.
+ This allows very large structures to be imported, such as the HIV virus capsid assembly.
+
+ - UniProt Free Text Search. The new search
+ dialog for UniProt allows you to browse and retrieve sequences
+ from UniProt with free-text search and more structured queries
+ - Reference sequence based alignment
+ visualisation.. When a reference sequence is defined for the
+ alignment, the alignment column ruler is now numbered according to
+ the reference sequence. The reference sequence for alignment views
+ can also be saved and restored from Jalview projects.
+
+
+
+
+