cathpy.core.models

Provides access to classes that representing general entities such as amino acids, db identifiers, etc.

from cathpy.core.models import (
    AminoAcid,
    AminoAcids,
    CathID,
    ClusterFile,
    FunfamID, )

aa = AminoAcids.get_by_id('A')

aa.one                      # 'A'
aa.three                    # 'ala'
aa.word                     # 'alanine'

AminoAcids.is_valid_aa('Z') # False

cathid = CathID("1.10.8.10.1")

cathid.sfam_id              # '1.10.8.10'
cathid.depth                # 5
cathid.cath_id_to_depth(3)  # '1.10.8'

funfam_file = ClusterFile("/path/to/1.10.8.10-ff-1234.reduced.sto")

funfam_file.path            # '/path/to/'
funfam_file.sfam_id         # '1.10.8.10'
funfam_file.cluster_type    # 'ff'
funfam_file.cluster_num     # 1234
funfam_file.desc            # '.reduced'
funfam_file.suffix          # '.sto'