lumicks.pylake
v0.10.0
Changelog
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Tutorial
Examples
Reference docs
API Reference
Literature
Force Calibration
F,d Fitting
Kymotracker
References
lumicks.pylake
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Index
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Index
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A
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B
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C
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D
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E
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F
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G
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H
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I
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J
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K
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L
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M
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N
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O
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P
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R
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S
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T
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U
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V
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W
_
__call__() (Model method)
(PassiveCalibrationModel method)
__getitem__() (CorrelatedStack method)
(File method)
(Kymo method)
(Slice method)
__init__() (CalibrationResults method)
(CorrelatedStack method)
(FdCurve method)
(FdFit method)
(FdRangeSelector method)
(File method)
(GaussianMixtureModel method)
(Kymo method)
(KymoLine method)
(Model method)
(PassiveCalibrationModel method)
(PointScan method)
(PowerSpectrum method)
(Scan method)
(Slice method)
A
add_data() (FdFit method)
aic (FdFit attribute)
(GaussianMixtureModel attribute)
aicc (FdFit attribute)
B
bic (FdFit attribute)
(GaussianMixtureModel attribute)
bluelake_version (File attribute)
C
calculate_power_spectrum() (in module lumicks.pylake)
calibration (Slice attribute)
calibration_results() (PassiveCalibrationModel method)
CalibrationResults (class in lumicks.pylake.force_calibration.power_spectrum_calibration)
center_point_um (Kymo attribute)
(PointScan attribute)
(Scan attribute)
CorrelatedStack (class in lumicks.pylake.correlated_stack)
cov (FdFit attribute)
crop_by_distance() (Kymo method)
D
d (FdCurve attribute)
data (Slice attribute)
derivative() (Model method)
description (File attribute)
dirty (FdFit attribute)
distance_offset() (in module lumicks.pylake)
downsampled_by() (Kymo method)
(PowerSpectrum method)
(Slice method)
downsampled_like() (Slice method)
downsampled_over() (Slice method)
downsampled_to() (Slice method)
E
estimate_diffusion_ols() (KymoLine method)
exit_flag (GaussianMixtureModel attribute)
experiment (File attribute)
export_tiff() (CorrelatedStack method)
export_time (File attribute)
export_video_blue() (Scan method)
export_video_green() (Scan method)
export_video_red() (Scan method)
export_video_rgb() (Scan method)
extrapolate() (KymoLine method)
F
f (FdCurve attribute)
FdCurve (class in lumicks.pylake.fdcurve)
fdcurves (FdRangeSelector attribute)
FdFit (class in lumicks.pylake)
FdRangeSelector (class in lumicks.pylake)
File (class in lumicks.pylake)
filter_lines() (in module lumicks.pylake)
fit() (FdFit method)
fit_power_spectrum() (in module lumicks.pylake)
force_offset() (in module lumicks.pylake)
format_version (File attribute)
freely_jointed_chain() (in module lumicks.pylake)
from_channel() (lumicks.pylake.GaussianMixtureModel class method)
from_data() (lumicks.pylake.correlated_stack.CorrelatedStack class method)
from_dataset() (lumicks.pylake.kymo.Kymo class method)
(lumicks.pylake.point_scan.PointScan class method)
(lumicks.pylake.scan.Scan class method)
from_h5py() (lumicks.pylake.File class method)
G
GaussianMixtureModel (class in lumicks.pylake)
guid (File attribute)
H
has_derivative (Model attribute)
has_fluorescence (Kymo attribute)
(PointScan attribute)
(Scan attribute)
has_force (Kymo attribute)
(PointScan attribute)
(Scan attribute)
has_jacobian (FdFit attribute)
(Model attribute)
hist() (GaussianMixtureModel method)
I
in_range() (PowerSpectrum method)
in_rect() (KymoLine method)
interpolate() (KymoLine method)
invert() (Model method)
inverted_freely_jointed_chain() (in module lumicks.pylake)
inverted_marko_siggia_simplified() (in module lumicks.pylake)
inverted_odijk() (in module lumicks.pylake)
inverted_twistable_wlc() (in module lumicks.pylake)
J
jacobian() (Model method)
json (Kymo attribute)
(PointScan attribute)
(Scan attribute)
K
Kymo (class in lumicks.pylake.kymo)
KymoLine (class in lumicks.pylake.kymotracker.kymoline)
L
label() (GaussianMixtureModel method)
line_time_seconds (Kymo attribute)
log_likelihood() (FdFit method)
M
marko_siggia_ewlc_distance() (in module lumicks.pylake)
marko_siggia_ewlc_force() (in module lumicks.pylake)
marko_siggia_simplified() (in module lumicks.pylake)
means (GaussianMixtureModel attribute)
Model (class in lumicks.pylake.fitting.model)
msd() (KymoLine method)
N
n_params (FdFit attribute)
n_residuals (FdFit attribute)
num_frames (CorrelatedStack attribute)
O
odijk() (in module lumicks.pylake)
P
parameter_trace() (in module lumicks.pylake)
params (FdFit attribute)
PassiveCalibrationModel (class in lumicks.pylake)
pdf() (GaussianMixtureModel method)
pixelsize_um (Kymo attribute)
(Scan attribute)
plot() (CalibrationResults method)
(CorrelatedStack method)
(FdFit method)
(GaussianMixtureModel method)
(Model method)
(PowerSpectrum method)
(Slice method)
plot_blue() (Kymo method)
(PointScan method)
(Scan method)
plot_correlated() (CorrelatedStack method)
plot_green() (Kymo method)
(PointScan method)
(Scan method)
plot_msd() (KymoLine method)
plot_red() (Kymo method)
(PointScan method)
(Scan method)
plot_rgb() (Kymo method)
(PointScan method)
(Scan method)
plot_scatter() (FdCurve method)
plot_with_force() (Kymo method)
plot_with_position_histogram() (Kymo method)
plot_with_time_histogram() (Kymo method)
PointScan (class in lumicks.pylake.point_scan)
PowerSpectrum (class in lumicks.pylake.force_calibration.power_spectrum)
profile_likelihood() (FdFit method)
R
ranges (FdRangeSelector attribute)
raw (CorrelatedStack attribute)
refine_lines_centroid() (in module lumicks.pylake)
refine_lines_gaussian() (in module lumicks.pylake)
S
sample_from_image() (KymoLine method)
sample_rate (Slice attribute)
save_as() (File method)
save_tiff() (Kymo method)
(Scan method)
Scan (class in lumicks.pylake.scan)
scan_width_um (Kymo attribute)
(Scan attribute)
seconds (Slice attribute)
sigma (FdFit attribute)
size_um (Kymo attribute)
(Scan attribute)
Slice (class in lumicks.pylake.channel)
start (CorrelatedStack attribute)
(Slice attribute)
std (GaussianMixtureModel attribute)
stop (CorrelatedStack attribute)
(Slice attribute)
subtract_independent_offset() (Model method)
T
timestamps (CorrelatedStack attribute)
(Kymo attribute)
(Scan attribute)
(Slice attribute)
track_greedy() (in module lumicks.pylake)
track_lines() (in module lumicks.pylake)
twistable_wlc() (in module lumicks.pylake)
U
update_params() (FdFit method)
V
variances (GaussianMixtureModel attribute)
verify_derivative() (Model method)
verify_jacobian() (Model method)
W
weights (GaussianMixtureModel attribute)
with_baseline_corrected_x() (FdCurve method)
with_channels() (FdCurve method)
with_offset() (FdCurve method)
(KymoLine method)
with_spectrum() (PowerSpectrum method)
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