palmari.tif_tools package#
Submodules#
palmari.tif_tools.cell_mask module#
palmari.tif_tools.correct_drift module#
palmari.tif_tools.density_filtering module#
palmari.tif_tools.intensity module#
palmari.tif_tools.localization module#
- palmari.tif_tools.localization.SMLM_localization(data: numpy.ndarray, factor: float = 1.0, filter_size: int = 3, scale: float = 2.0, verbose: bool = False, return_all: bool = False, subpixel_mode: str = 'radial', frame_start: int = 0)[source]#
- palmari.tif_tools.localization.localize_movie(movie: Any, factor: float = 1.0, filter_size: int = 3, sliding_filter: bool = False, verbose: bool = False, subpixel_mode: str = 'radial', progress_bar: bool = False)[source]#
- palmari.tif_tools.localization.lsradialcenterfit(m, b, w)[source]#
Adapted from Matlab code found in https://www.nature.com/articles/nmeth.2071 Least squares solution to determine the radial symmetry center. Inputs m, b, w are defined on a grid. w are the weights for each point.
- palmari.tif_tools.localization.phaser(ROI: numpy.array)[source]#
Adapted from https://colab.research.google.com/drive/1Jir3HxTZ-au8L56ZrNHGxfBD0XlDkOMl
- Parameters
ROI (np.array) – 2D array on which to run the dubpixel localization.
- Returns
x, y, sigma. in pixels.
- Return type
tuple