What's new ?

X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=sidebyside;f=help%2Fhtml%2FwhatsNew.html;h=ac4831328124a5a75e88481af90d5c2fa058f5a3;hb=fd102a4945da5c62de156159c98a6a2c51f1ebbc;hp=6989dd4bc39af1360b89c11ef2db4ada80368bee;hpb=67594472bd8920efa45169478981b700b79ae683;p=jalview.git diff --git a/help/html/whatsNew.html b/help/html/whatsNew.html index 6989dd4..ac48313 100755 --- a/help/html/whatsNew.html +++ b/help/html/whatsNew.html @@ -1,26 +1,74 @@ - - -What's new ? - - -

What's new ?

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Jalview Version 2.2.1

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Non standard characters can be read and displayed

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Annotations/Features can be imported/exported to the applet via textbox

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Applet allows editing of sequence/annotation/group name & description

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Preference setting to display sequence name in italics

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Annotation file format extended to allow Sequence_groups to be defined

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Default opening of alignment overview panel can be specified in preferences

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Issues Resolved

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- Applet crash under certain Linux OS with Java 1.6 installed

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Annotation file export / import bugs fixed

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PNG / EPS image output bugs fixed
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See the Release History page for -details of all new features and resolved issues.

- - + + + +What's new ? + + +

+ What's new ? +

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+ 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. +

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+ Highlights in Jalview 2.10 +

Ensembl sequence fetcher. Annotated Genes, + transcripts and proteinsÂ 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. + mmCIF files allow Jalview to handle very large structures, + 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.

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