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David Rotermund 2024-08-12 13:01:40 +02:00 committed by GitHub
parent 7aac0ad08a
commit e53c8e9fdf
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1 changed files with 9 additions and 3 deletions
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geci_plot.py
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@ -19,7 +19,7 @@ def func_exp(x, a, b, c):
def plot( def plot(
filename: str = "config_M_Sert_Cre_49.json", filename: str = "config_M_Sert_Cre_49.json",
experiment: int = 4, experiment: int = 4,
skip_timesteps: int = 0, skip_timesteps: int = 100,
# If there is no special ROI... Get one! This is just a backup # If there is no special ROI... Get one! This is just a backup
roi_control_path_default: str = "roi_controlM_Sert_Cre_49.npy", roi_control_path_default: str = "roi_controlM_Sert_Cre_49.npy",
roi_sdarken_path_default: str = "roi_sdarkenM_Sert_Cre_49.npy", roi_sdarken_path_default: str = "roi_sdarkenM_Sert_Cre_49.npy",
@ -93,13 +93,19 @@ def plot(
plt.show(block=False) plt.show(block=False)
plt.figure(3) plt.figure(3)
light_exp = light[experiment - 1, :, :, skip_timesteps:].copy() if remove_fit:
light_exp = light[experiment - 1, :, :, skip_timesteps:].copy()
else:
light_exp = light[experiment - 1, :, :, :].copy()
light_exp[(roi_darken + roi_control) < 0.5, :] = 0.0 light_exp[(roi_darken + roi_control) < 0.5, :] = 0.0
light_signal = light_exp.mean(axis=(0, 1)) light_signal = light_exp.mean(axis=(0, 1))
light_signal -= light_signal.min() light_signal -= light_signal.min()
light_signal /= light_signal.max() light_signal /= light_signal.max()
a_exp = data[experiment - 1, :, :, skip_timesteps:].copy() if remove_fit:
a_exp = data[experiment - 1, :, :, skip_timesteps:].copy()
else:
a_exp = data[experiment - 1, :, :, :].copy()
if remove_fit: if remove_fit:
combined_matrix = (roi_darken + roi_control) > 0 combined_matrix = (roi_darken + roi_control) > 0