sugar.core._adapter module

Adapters for other bio libraries

The functions in this module are not meant to be called directly. Rather, they should be called via the corresponding sugar class methods.

sugar.core._adapter.biopython2ft(obj, cls=<class 'sugar.core.fts.Feature'>)

See Feature.frombiopython()

sugar.core._adapter.biopython2fts(obj, cls=<class 'sugar.core.fts.FeatureList'>)

See FeatureList.frombiopython()

sugar.core._adapter.biopython2seq(obj, cls=<class 'sugar.core.seq.BioSeq'>)

See BioSeq.frombiopython()

sugar.core._adapter.biopython2seqs(obj, cls=<class 'sugar.core.seq.BioBasket'>)

See BioBasket.frombiopython()

sugar.core._adapter.biotite2seq(obj, cls=<class 'sugar.core.seq.BioSeq'>)

See BioSeq.frombiotite()

sugar.core._adapter.biotite2seqs(obj, cls=<class 'sugar.core.seq.BioBasket'>)

See BioBasket.frombiotite()

sugar.core._adapter.ft2biopython(ft)

See Feature.tobiopython()

sugar.core._adapter.fts2biopython(fts)

See FeatureList.tobiopython()

sugar.core._adapter.seq2biopython(seq)

See BioSeq.tobiopython()

sugar.core._adapter.seq2biotite(seq, type=None, gap='-', warn=True)

See BioSeq.tobiotite()

sugar.core._adapter.seqs2biopython(seqs, msa=False)

See BioBasket.tobiopython()

sugar.core._adapter.seqs2biotite(oseqs, type=None, msa=False, gap='-', warn=True)

See BioBasket.tobiotite()