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Fix min and max mz filtering in cut_mz_domain_noise #13

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Fix min and max mz filtering in cut_mz_domain_noise #13

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9a22b35
Fix min and max mz filtering in cut_mz_domain_noise
Kzra Mar 6, 2023
0164831
updated indexing
Kzra Mar 7, 2023
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16 changes: 8 additions & 8 deletions corems/mass_spectrum/calc/NoiseCalc.py
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Original file line number Diff line number Diff line change
Expand Up @@ -120,20 +120,20 @@ def cut_mz_domain_noise(self):

if max_mz_noise > max_mz_whole_ms:
max_mz_noise = max_mz_whole_ms

#print(min_mz_noise, max_mz_noise)
low_mz_index = (where(self.mz_exp_profile >= min_mz_noise)[0][0])
#print(self.mz_exp_profile[low_mz_index])
# low_mz_index = (argmax(self.mz_exp_profile <= min_mz_noise))

high_mz_index = (where(self.mz_exp_profile <= max_mz_noise)[-1][-1])

#the following indexing relies on mz_exp_profile being ordered high mz to low mz
low_mz_index = (where(self.mz_exp_profile >= min_mz_noise)[-1][-1])
#print(self.mz_exp_profile[low_mz_index])
#low_mz_index = (argmax(self.mz_exp_profile <= min_mz_noise))

high_mz_index = (where(self.mz_exp_profile <= max_mz_noise)[0][0])
#print(self.mz_exp_profile[high_mz_index])
#high_mz_index = (argmax(self.mz_exp_profile <= max_mz_noise))

if high_mz_index > low_mz_index:
# pyplot.plot(self.mz_exp_profile[low_mz_index:high_mz_index], self.abundance_profile[low_mz_index:high_mz_index])
# pyplot.show()
return self.mz_exp_profile[high_mz_index:low_mz_index], self.abundance_profile[low_mz_index:high_mz_index]
return self.mz_exp_profile[low_mz_index:high_mz_index], self.abundance_profile[low_mz_index:high_mz_index]
else:
# pyplot.plot(self.mz_exp_profile[high_mz_index:low_mz_index], self.abundance_profile[high_mz_index:low_mz_index])
# pyplot.show()
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