def hydf(self, fragmentation_site, ion_type):
if fragmentation_site <= 0 or fragmentation_site >= self.length:
return 0
s = 0
if ion_type == 'b':
for i in range(fragmentation_site):
h = hydph.get_aa_hydph(self.peptide[i])
s += h
elif ion_type == 'y':
for i in range(fragmentation_site, self.length - 1):
h = hydph.get_aa_hydph(self.peptide[i])
s += h
return s
def sequence_hydph_info(self):
vector = []
for i in range(self.length):
vector.append(hydph.get_aa_hydph(self.peptide[i]))
return vector
def hydp(self):
s = 0
for aa in self.peptide:
s += hydph.get_aa_hydph(aa)
return s
def hydc_fragmentation_site(self, fragmentation_site):
if fragmentation_site <= 0 or fragmentation_site >= self.length:
return 0
return hydph.get_aa_hydph(self.peptide[fragmentation_site])
def hydc_x(self, fragmentation_site, distance):
if fragmentation_site + distance <= 0\
or fragmentation_site + distance >= self.length:
return 0
return hydph.get_aa_hydph(self.peptide[fragmentation_site + distance])
def hydpra(self, fragmentation_site):
if fragmentation_site <= 0 or fragmentation_site >= self.length:
return 0
return (hydph.get_aa_hydph(self.peptide[fragmentation_site])
+ hydph.get_aa_hydph(self.peptide[fragmentation_site - 1])) / 2
