Index A | B | C | D | E | F | G | H | I | L | M | N | O | P | R | S | T | U | V A AbstractSequenceCollection (class in picea) add() (picea.AbstractSequenceCollection method) (picea.MultipleSequenceAlignment method) (picea.Ontology method) (picea.SequenceAnnotation method) (picea.SequenceCollection method) align() (picea.MultipleSequenceAlignment method) (picea.SequenceCollection method) Alphabet (class in picea) alphabets (in module picea) amino_acids (picea.Sequence property) B BatchSequenceReader (class in picea) breadth_first() (picea.Tree method) C calculate_tree_layout() (in module picea) children (picea.OntologyTerm property) (picea.SequenceInterval property) complement (picea.Sequence property) complement() (picea.Alphabet method) D depth_first() (picea.Tree method) E elements (picea.Ontology property) (picea.SequenceAnnotation property) F filter() (picea.Ontology method) (picea.SequenceAnnotation method) from_dict() (picea.SequenceInterval class method) (picea.Tree class method) from_fasta() (picea.AbstractSequenceCollection class method) (picea.MultipleSequenceAlignment class method) (picea.Sequence class method) (picea.SequenceCollection class method) from_gff() (picea.SequenceAnnotation class method) from_gff_line() (picea.SequenceInterval class method) from_gtf() (picea.SequenceAnnotation class method) from_gtf_line() (picea.SequenceInterval class method) from_json() (picea.AbstractSequenceCollection class method) (picea.MultipleSequenceAlignment class method) (picea.SequenceAnnotation class method) (picea.SequenceCollection class method) (picea.Tree class method) from_newick() (picea.Tree class method) from_obo() (picea.Ontology class method) from_sequence_iter() (picea.AbstractSequenceCollection class method) (picea.MultipleSequenceAlignment class method) (picea.SequenceCollection class method) from_sklearn() (picea.Tree class method) G gff_attributes (picea.SequenceInterval property) groupby() (picea.Ontology method) (picea.SequenceAnnotation method) gtf_attributes (picea.SequenceInterval property) guess_alphabet() (in module picea) H headers (picea.AbstractSequenceCollection property) (picea.MultipleSequenceAlignment property) (picea.SequenceCollection property) I ID (picea.OntologyTerm property) (picea.SequenceInterval property) iloc (picea.AbstractSequenceCollection property) (picea.MultipleSequenceAlignment property) (picea.SequenceCollection property) (picea.Tree property) intervals (picea.SequenceAnnotation property) L leaves (picea.Tree property) links (picea.Tree property) loc (picea.Tree property) lowercase (picea.Sequence property) M modify_inplace() (picea.AbstractSequenceCollection method) (picea.MultipleSequenceAlignment method) (picea.SequenceCollection method) MultipleSequenceAlignment (class in picea) N n_chars (picea.MultipleSequenceAlignment property) n_seqs (picea.AbstractSequenceCollection property) (picea.MultipleSequenceAlignment property) (picea.SequenceCollection property) nodes (picea.Tree property) O Ontology (class in picea) OntologyTerm (class in picea) P pairwise_distances() (picea.MultipleSequenceAlignment method) parent (picea.SequenceInterval property) parents (picea.OntologyTerm property) (picea.SequenceInterval property) pop() (picea.AbstractSequenceCollection method) (picea.MultipleSequenceAlignment method) (picea.Ontology method) (picea.SequenceAnnotation method) (picea.SequenceCollection method) R rename_inplace() (picea.AbstractSequenceCollection method) (picea.MultipleSequenceAlignment method) (picea.SequenceCollection method) rename_leaves() (picea.Tree method) reverse (picea.Sequence property) reverse_complement (picea.Sequence property) root (picea.Tree property) S score() (picea.Alphabet method) Sequence (class in picea) SequenceAnnotation (class in picea) SequenceCollection (class in picea) SequenceInterval (class in picea) SequenceReader (class in picea) sequences (picea.AbstractSequenceCollection property) (picea.MultipleSequenceAlignment property) (picea.SequenceCollection property) shape (picea.MultipleSequenceAlignment property) T to_dict() (picea.Sequence method) (picea.SequenceInterval method) (picea.Tree method) to_fasta() (picea.AbstractSequenceCollection method) (picea.MultipleSequenceAlignment method) (picea.Sequence method) (picea.SequenceCollection method) to_gff() (picea.SequenceAnnotation method) to_gff_line() (picea.SequenceInterval method) to_gtf() (picea.SequenceAnnotation method) to_gtf_line() (picea.SequenceInterval method) to_json() (picea.AbstractSequenceCollection method) (picea.MultipleSequenceAlignment method) (picea.SequenceAnnotation method) (picea.SequenceCollection method) (picea.SequenceInterval method) (picea.Tree method) to_newick() (picea.Tree method) to_nexus() (picea.MultipleSequenceAlignment method) to_sklearn() (picea.Tree method) translate() (picea.Alphabet method) Tree (class in picea) treeplot() (in module picea) U uppercase (picea.Sequence property) V validate() (picea.Alphabet method)