Package org.snpeff.pdb
Class PdbFile
java.lang.Object
org.snpeff.pdb.PdbFile
A structure that reads PDB files
This code is similar to 'PDBFileReader' from BioJava, but the BioJava version doesn't close file descriptors and eventually crashes when reading many files.
- Author:
- pcingola
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Field Summary
Fields -
Constructor Summary
Constructors -
Method Summary
Modifier and TypeMethodDescriptionParse ProteinId from PDB file nameorg.biojava.nbio.structure.Structure
load()
Opens filename, parses it and returns aStructure object .void
Analyze a PDB file
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Field Details
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PDB_ENT_EXT
- See Also:
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PDB_ENT_EXT_GZ
- See Also:
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PDB_EXT
- See Also:
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PDB_EXT_GZ
- See Also:
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PDB_EXTS
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PDB_RESOLUTION_UNSET
public static final double PDB_RESOLUTION_UNSET- See Also:
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UNIPROT_DATABASE
- See Also:
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Constructor Details
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PdbFile
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Method Details
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fileName2ProteinId
Parse ProteinId from PDB file name -
getProteinId
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load
Opens filename, parses it and returns aStructure object .- Throws:
IOException
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pdbAnalysis
Analyze a PDB file- Throws:
IOException
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