Changes between Version 2 and Version 3 of Functionality

Timestamp:

Apr 6, 2015, 11:23:15 AM (11 years ago)

Author:

Tom Goddard

Comment:

--

Functionality

@@ -5 +5 @@
 There is a [http://www.cgl.ucsf.edu/chimera/data/hydra-mar2014/hydra.html#ideas list of deas] in Hydra feature slides from March 2014.
 
-Areas
+Areas.  Can we make these significantly better than in Chimera 1?  Which are best for an initial release?
 
  * Scenes
- * Presentation images
- * cellPACK / multiscale models
+ * Presentation images (ribbons, pipes planks, nucleotides, surface capping, pseudobonds)
+ * cellPACK / multiscale models (opening data, grouping, clipping, running cellPACK)
  * Multi-Domain Assembler (port?)
- * Comparitive structure analysis (clustering, morphing, showing differences)
+ * Comparitive structure analysis (match maker, morphing, tiling, clustering, showing differences)
+ * Single sequences, interactive display, secondary structure, database annotations
+ * Sequence alignments
+ * Structure build/refine (addH, loop model, minimize, swapaa, build standard geom)
  * Optical microscopy 3d time series
  * Cross-links and EM, Jan Kosinski EMBL, IMP, Rosetta
+ * Protein-protein interfaces (clashes, electrostatic potential, add charge, hydrogen bonds, nice contact map depictions)
+ * Measurements, axes/planes/centroids/angles/distances/buried area/cavity volumes with graphical depictions.
  * Docking results analysis, !ViewDock
- * Small ligand binding analysis (pocket surfaces, areas, hydrogen bonds, ...)
+ * Small ligand binding analysis (pocket surfaces, areas, hydrogen bonds, metal coordination...)
  * Evaluating 3A EM maps and atomic models
  * Map fitting