What's new ?

X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhelp%2Fhtml%2FwhatsNew.html;fp=help%2Fhelp%2Fhtml%2FwhatsNew.html;h=0000000000000000000000000000000000000000;hb=3459a8a691cb22508d7067f240b7254e588e77d3;hp=4e7be71fc9e024197f25c1e381821e3b2fe0751c;hpb=5b27f1062b2203c4c31702e205f4c78e1992063e;p=jalview.git diff --git a/help/help/html/whatsNew.html b/help/help/html/whatsNew.html deleted file mode 100755 index 4e7be71..0000000 --- a/help/help/html/whatsNew.html +++ /dev/null @@ -1,92 +0,0 @@ - - - -What's new ? - - -

- Welcome to Jalview Version $$Version-Rel$$ !! -
Please take a - look at the release - notes for this build. Read on for the highlights. -

- Highlights in 2.11.2 -

- New features for working with 3D Structure
- Jalview 2.11.2 features a number of new capabilities: - -

Linked viewing with ChimeraX and - PyMol
Simply configure your prefered viewer for 3D - molecular data in Jalview's - structure preferences, make sure that Jalview can locate the - viewer's installation, and open a new view via the 3D Structure - Chooser!
View predicted protein structures via - 3D-Beacons
Jalview 2.11.2's Structure Chooser - includes a client for the 3D-Beacons Network, a new service that - allows predicted and observed 3D models for proteins in Uniprot - from a range of resources, including AlphaFold DB, SWISS-MODEL and - a growing number of other resources.

- Retrieval of 3D models via 3D-Beacons
The - 3D-Beacons network (www.ebi.ac.uk/pdbe/pdbe-kb/3dbeacons/) - provides a central point for the retrieval of predicted and - observed 3D structures for sequences in Uniprot, including - homology models from Swiss-model and deep learning based - predictions from the EBI's Alphafold database (Orengo et al. 2020, - doi:10.12688/f1000research.20559.1).
- See the Structure - Chooser's documentation. -

- Support for viewing structures with ChimeraX and - Pymol
Structures Preferences tab provides new options - allowing ChimeraX and Pymol to be used for visualising external 3D - structures. Jalview 2.11.2 has been tested with Pymol 2.5.0 - (community) and 2.5.2 (incentive). For ChimeraX, we recommend - using v1.3 or later. Jalview's 3D structure viewer system has been - re-architected to allow easier integration of external structure - viewers, and takes advantage of the strucViz2 Chimera - communications library developed by Scooter Morris (doi:10.1093/bioinformatics/btm329). -

- For the full release notes, see the Jalview 2.11.1.4 - release notes. -

- Known Issues -

New known issues in this release affect recovery of - CDS/Protein relationships from project files, and interactive - selection of protein sequences from a tree built on linked - nucleotide sequences. We will provide patches for these issues as - soon as possible.

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