Athemis/pyKinetics
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option to disable MM calculation; option to scale y and x axis in kinetics plot as log

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This commit is contained in:
Alexander Minges 2016-04-08 15:55:57 +02:00
parent 19c97dc6f2
commit b8a950fbc8
2 changed files with 49 additions and 5 deletions
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9
libkinetics/__init__.py
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@ -225,7 +225,7 @@ class Experiment():
lower and upper bounds for calculating the v0 linear fit.
"""
def __init__(self, data_files, xlim, do_hill=False,
def __init__(self, data_files, xlim, do_hill=False, no_mm=False,
fit_to_replicates=False, logger=None):
"""
Inits Experiment class with experimental parameters
@ -240,6 +240,8 @@ class Experiment():
linear fitting of v0
do_hill: boolean to define whether to fit Hill-type kinetics in
addition to Michaelis-Menten kinetics. Defaults to False
no_mm: boolean to define whether the calculation of Michaelis-Menten
kinetics is supressed. Defaults to False
fit_to_replicates: boolean to define wheter to fit to individual
replicates instead of the avarage slope. Defaults to False
logger: logging.Logger instance. If not given, a new logger is
@ -311,7 +313,10 @@ class Experiment():
self.raw_kinetic_data['yerr'].append(m.avg_slope_err)
# calculate kinetics
self.mm = self.do_mm_kinetics()
if not no_mm:
self.mm = self.do_mm_kinetics()
else:
self.mm = None
if do_hill:
self.hill = self.do_hill_kinetics()
else: