Package org.biojava.bio.structure.io
Input and Output of Structures
-
Interface Summary Interface Description StructureIO Defines the interface how to access Structure (- PDB file) input,output readers, writers.StructureIOFile interface StructureIOFile extends the StructureIO interface and adds a few File specific methods. -
Class Summary Class Description CAConverter Converts full atom representations to Calpha only ones.DASStructureClient A DAS client that connects to a DAS structure service and returns a Biojava structure class.FileConvert Methods to convert a structure object into different file formats.MMCIFFileReader How to parse an mmCif file:PDBFileParser This class implements the actual PDB file parsing.PDBFileReader The wrapper class for parsing a PDB file.PDBMSDReader retreive a structure from an installation of the MSD - search database ( http://www.ebi.ac.uk/msd/index.html , http://www.ebi.ac.uk/msd-srv/docs/dbdoc/ )PDBSRSReader reads a PDB file from a local SRS installation using getz Actually is the same as PDBFileReader, but instead of reading from a file stream, reads from a buffered stream.SeqRes2AtomAligner Aligns the SEQRES residues to the ATOM residues. -
Exception Summary Exception Description PDBParseException An exception during the parsing of a PDB file.