API ReferenceΒΆ

biotite
biotite.application
biotite.application.blast A subpackage for heuristic local alignments against a large database using BLAST.
biotite.application.clustalo A subpackage for multiple sequence alignments using Clustal-Omega.
biotite.application.dssp A subpackage for protein secondary structure annotation using DSSP.
biotite.application.mafft A subpackage for multiple sequence alignments using MAFFT.
biotite.application.muscle A subpackage for multiple sequence alignments using MUSCLE.
biotite.database A subpackage for fetching data from online databases.
biotite.database.entrez A subpackage for downloading files from the NCBI Entrez database.
biotite.database.rcsb A subpackage for downloading files from the RCSB PDB.
biotite.sequence A subpackage for handling sequences.
biotite.sequence.align This subpackage provides functionality for sequence alignemnts.
biotite.sequence.graphics A subpackage for visualization of sequence and sequence related objects.
biotite.sequence.io A subpackage for reading and writing sequence related data.
biotite.sequence.io.fasta This subpackage is used for reading and writing sequence objects using the popular FASTA format.
biotite.sequence.io.genbank This subpackage is used for reading information (especially sequence features) from files in the GenBank and GenPept format.
biotite.structure A subpackage for handling molecular structures.
biotite.structure.io A subpackage for reading and writing structure related data.
biotite.structure.io.gro This subpackage is used for reading and writing an AtomArray or AtomArrayStack using the Gro format used by the gromacs software package.
biotite.structure.io.mmtf This subpackage is used for reading and writing an AtomArray or AtomArrayStack using the binary MMTF format.
biotite.structure.io.npz This subpackage is used for reading and writing an AtomArray or AtomArrayStack using the internal NPZ file format.
biotite.structure.io.pdb This subpackage is used for reading and writing an AtomArray or AtomArrayStack using the popular PDB format.
biotite.structure.io.pdbx This subpackage provides support for the the modern PDBx/mmCIF file format.
biotite.structure.io.tng
biotite.structure.io.trr
biotite.structure.io.xtc