primerdriver.primer_design.PrimerDesign

class primerdriver.primer_design.PrimerDesign(mode: str, sequence, mutation_type, mismatched_bases=None, target=None, replacement=None, position=None, savename=None, print_buffer=20, settings=Settings(Tm_range_min=75.0, Tm_range_max=85.0, gc_range_min=40.0, gc_range_max=60.0, length_min=25, length_max=45, flank5_range_min=11, flank5_range_max=21, flank3_range_min=11, flank3_range_max=21, forward_overlap5=9, forward_overlap3=9, terminate_gc=True, center_mutation=False, primer_mode='overlapping', expression_system='Homo sapiens'))

__init__(mode: str, sequence, mutation_type, mismatched_bases=None, target=None, replacement=None, position=None, savename=None, print_buffer=20, settings=Settings(Tm_range_min=75.0, Tm_range_max=85.0, gc_range_min=40.0, gc_range_max=60.0, length_min=25, length_max=45, flank5_range_min=11, flank5_range_max=21, flank3_range_min=11, flank3_range_max=21, forward_overlap5=9, forward_overlap3=9, terminate_gc=True, center_mutation=False, primer_mode='overlapping', expression_system='Homo sapiens'))

Methods

__init__(mode, sequence, mutation_type[, ...])
calculate_gc_content(seq)
calculate_melting_temperature(seq, ...)
calculate_mismatch(seq, mismatched_bases)
characterize_primer(sequence, mutation_type, ...)
deletion(sequence, mutation_type, target, ...)
dna_based()
get_reverse_complement(seq)
insertion(sequence, mutation_type, target, ...)
is_gc_end(sequence)
main()
protein_based()
substitution(sequence, mutation_type, ...)

Attributes

lut
df