Index

A

apply_filter() (rsnaped.rsnaped.BandpassFilter method) (rsnaped.rsnaped.GaussianFilter method) (rsnaped.rsnaped.GaussianLaplaceFilter method)

apply_mask() (rsnaped.rsnaped.MaskingImage method) apply_scale() (rsnaped.rsnaped.ScaleIntensity method) AugmentationVideo (class in rsnaped.rsnaped)

B

BandpassFilter (class in rsnaped.rsnaped)

BeadsAlignment (class in rsnaped.rsnaped)

C

calculate_autocovariance() (rsnaped.rsnaped.Covariance method) calculate_intensity() (rsnaped.rsnaped.Intensity method) calculate_masks() (rsnaped.rsnaped.Cellpose method) calculate_msd() (rsnaped.rsnaped.ParticleMotion method) CamerasAlignment (class in rsnaped.rsnaped)

Cellpose (class in rsnaped.rsnaped) CellposeSelection (class in rsnaped.rsnaped) convert_to_int8() (rsnaped.rsnaped.Utilities method) ConvertToStandardFormat (class in rsnaped.rsnaped) Covariance (class in rsnaped.rsnaped) create_report() (rsnaped.rsnaped.ReportPDF method)

E

extract_field_from_dataframe() (rsnaped.rsnaped.Utilities method)

G

GaussianFilter (class in rsnaped.rsnaped)

GaussianLaplaceFilter (class in rsnaped.rsnaped)

I

image_to_video() (rsnaped.rsnaped.ConvertToStandardFormat method)

Intensity (class in rsnaped.rsnaped)

M

make_beads_alignment() (rsnaped.rsnaped.BeadsAlignment method) make_simulation() (rsnaped.rsnaped.SimulatedCell method) (rsnaped.rsnaped.SimulatedCellDispatcher method) make_video_alignment() (rsnaped.rsnaped.CamerasAlignment method) make_video_app() (rsnaped.rsnaped.VisualizerCrops method) (rsnaped.rsnaped.VisualizerVideo method) (rsnaped.rsnaped.VisualizerVideo3D method)

MaskingImage (class in rsnaped.rsnaped) merge() (rsnaped.rsnaped.MergeChannels method) MergeChannels (class in rsnaped.rsnaped) MetadataImageProcessing (class in rsnaped.rsnaped) MetadataSimulatedCell (class in rsnaped.rsnaped) module rsnaped.rsnaped

P

ParticleMotion (class in rsnaped.rsnaped) perform_tracking() (rsnaped.rsnaped.Trackpy method) PhotobleachingCalculation (class in rsnaped.rsnaped)

PipelineTracking (class in rsnaped.rsnaped) plot() (rsnaped.rsnaped.VisualizerImage method) plot_image_channels() (rsnaped.rsnaped.Plots method) Plots (class in rsnaped.rsnaped)

R

random_rotation() (rsnaped.rsnaped.AugmentationVideo method) read() (rsnaped.rsnaped.ReadImages method) ReadImages (class in rsnaped.rsnaped) remove_extrema_in_vector() (rsnaped.rsnaped.Utilities method) remove_outliers() (rsnaped.rsnaped.RemoveExtrema method)

RemoveExtrema (class in rsnaped.rsnaped) ReportPDF (class in rsnaped.rsnaped) rsnaped.rsnaped module run() (rsnaped.rsnaped.PipelineTracking method)

S

ScaleIntensity (class in rsnaped.rsnaped) select_mask() (rsnaped.rsnaped.CellposeSelection method) simulate() (rsnaped.rsnaped.SimulateRNA method) (rsnaped.rsnaped.SSA_rsnapsim method)

simulate_cell() (in module rsnaped.rsnaped) SimulatedCell (class in rsnaped.rsnaped) SimulatedCellDispatcher (class in rsnaped.rsnaped) SimulateRNA (class in rsnaped.rsnaped) SSA_rsnapsim (class in rsnaped.rsnaped)

T

Trackpy (class in rsnaped.rsnaped)

transpose_video() (rsnaped.rsnaped.ConvertToStandardFormat method)

U

Utilities (class in rsnaped.rsnaped)

V

VisualizerCrops (class in rsnaped.rsnaped) VisualizerImage (class in rsnaped.rsnaped)

VisualizerVideo (class in rsnaped.rsnaped) VisualizerVideo3D (class in rsnaped.rsnaped)

W

write_metadata() (rsnaped.rsnaped.MetadataImageProcessing method) (rsnaped.rsnaped.MetadataSimulatedCell method)