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Symmetry Chapter #6

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Merged
andreasprlic merged 13 commits into from
Aug 6, 2015
Merged

Symmetry Chapter #6

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34ba644
Update Structure readme
lafita Aug 5, 2015
dd114d0
Capitalize titles in front page
lafita Aug 5, 2015
24584ea
fix typos in structure data model
lafita Aug 5, 2015
921d825
Symmetry chapter template
lafita Aug 5, 2015
e18b322
Symmetry images
lafita Aug 5, 2015
a485322
Explain quaternary symmetry detection
lafita Aug 5, 2015
8e4e7f0
Point Group image
lafita Aug 5, 2015
70a9a06
Merge branch 'symmetry' of https://github.com/lafita/biojava-tutorial…
lafita Aug 5, 2015
5606056
CeSymm description
lafita Aug 6, 2015
317bd76
Explain symmetry GUI
lafita Aug 6, 2015
7176268
Explain combined quat and internal symmetries
lafita Aug 6, 2015
b49ea81
Update footers
lafita Aug 6, 2015
ef991d3
typo fix
lafita Aug 6, 2015
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fix typos in structure data model
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lafita committed Aug 5, 2015
commit 24584ea870e2ddd1c27a6e9a48e0a880d2bfc4f8
4 changes: 2 additions & 2 deletions structure/alignment-data-model.md
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Expand Up @@ -215,14 +215,14 @@ ensemble constructor. An example on how to do it programatically is below:
Atom[] chain2;
boolean flexible = false;
MultipleAlignmentEnsemble ensemble = new MultipleAlignmentEnsemble(afpChain, chain1, chain2, false);
MultipleAlignment converted = ensemble.getMultipleAlignments().get(0);
MultipleAlignment converted = ensemble.getMultipleAlignment(0);
```

There is no method to convert from a `MultipleAlignment` to an `AFPChain`, because
the first representation supports any number of structures, while the second is
only supporting pairwise alignments. However, the conversion can be done with some
lines of code if needed (instantiate a new `AFPChain` and copy one by one the
properties that can be represented from the `MultipleAlignment`.
properties that can be represented from the `MultipleAlignment`).

===

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