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'STRAP:multiple sequence alignments ' | ||||||||
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public interface ProteinWriter
A ProteinWriter is used to export a protein to a text file using a certain format such as pdb or fasta.
Field Summary | |
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static long |
ATOM_LINES
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static long |
CHAIN_A
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static long |
CHAIN_B
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static long |
CHAIN_SPACE
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static long |
COMPLETE_PDB
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static long |
FASTA
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static long |
HELIX_SHEET
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static long |
HETEROS
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static long |
IDX_FOR_RESNUM
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static long |
MET_INSTEAD_OF_MSE
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static long |
NUCLEOTIDE_STRUCTURE
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static long |
NUCLEOTIDES
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static long |
PDB
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static long |
SEQRES
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static long |
SEQRES_IF_COORDINATES
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static long |
SIDE_CHAIN_ATOMS
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Method Summary | |
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java.lang.String |
getFileSuffix()
Extension ".pdb" forPDB-files and ".fa" for fasta-files |
void |
selectResidues(boolean[] isSelected)
do not write all residues but only a certain subset. |
void |
setResidueRange(int indexOfFirstAmino,
int indexOfLastPlus1)
index of first and last amino acid |
boolean |
toText(Protein p,
Matrix3D[] m3d,
long mode,
BA sb)
Writes the protein data e.g. |
Field Detail |
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static final long PDB
static final long FASTA
static final long ATOM_LINES
static final long SIDE_CHAIN_ATOMS
static final long SEQRES
static final long SEQRES_IF_COORDINATES
static final long HETEROS
static final long NUCLEOTIDE_STRUCTURE
static final long NUCLEOTIDES
static final long HELIX_SHEET
static final long MET_INSTEAD_OF_MSE
static final long CHAIN_SPACE
static final long CHAIN_A
static final long CHAIN_B
static final long IDX_FOR_RESNUM
static final long COMPLETE_PDB
Method Detail |
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boolean toText(Protein p, Matrix3D[] m3d, long mode, BA sb)
java.lang.String getFileSuffix()
void setResidueRange(int indexOfFirstAmino, int indexOfLastPlus1)
void selectResidues(boolean[] isSelected)
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