Protein sequences¶
Creating a ProteinSequence with a name¶
from cogent3 import PROTEIN
p = PROTEIN.make_seq("THISISAPRQTEIN", "myProtein")
type(p)
str(p)
'THISISAPRQTEIN'
Converting a DNA sequence string to protein sequence string¶
from cogent3.core.genetic_code import DEFAULT as standard_code
standard_code.translate("TTTGCAAAC")
'FAN'
Conversion to a ProteinSequence from a DnaSequence is shown in Translate a DnaSequence to protein.
Loading protein sequences from a Phylip file¶
from cogent3 import load_aligned_seqs
seq = load_aligned_seqs("data/abglobin_aa.phylip", moltype="protein")