28 projects
torch-grid-utils
Grid utilities for 2D/3D image manipulations in PyTorch
dynamotable
Read and write Dynamo table files as pandas dataframes
torch-cubic-spline-grids
Cubic spline interpolation on multidimensional grids in PyTorch
torch-fourier-slice
Fourier slice extraction/insertion in PyTorch.
torch-subpixel-crop
Extract 2D/3D subimages with subpixel precision in PyTorch
torch-fourier-shell-correlation
Compute the Fourier shell correlation in PyTorch
torch-fourier-shift
Shift 2D/3D images by phase shifting Fourier transforms in PyTorch
torch-fourier-rescale
Rescale 2D and 3D images by Fourier padding/cropping in PyTorch
mdocfile
SerialEM mdoc files as pandas dataframes.
napari-threedee
A suite of useful tools based on 3D interactivity in napari
starfile
STAR file I/O in Python
napari-tomoslice
Tomogram visualisation and annotation in napari.
morphosamplers
A library for sampling image data along morphological objects such as splines and surfaces.
imodmodel
IMOD model files as pandas DataFrames in Python.
torch-image-lerp
Linear interpolation and gridding for 2D and 3D images in PyTorch
yet-another-imod-wrapper
A simple API for automated tilt-series alignment using IMOD
napari-mrcfile-reader
Read MRC2014 files in napari using mrcfile.
fidder
U-Net for 2D fiducial segmentation in cryo-EM
torch-cubic-b-spline-grid
Cubic B-spline interpolation on multidimensional grids in PyTorch
mdocspoofer
spoof SerialEM mdoc files from images collected in Tomography v5 from ThermoFisher
segmentation-nets-in-pytorch
A collection of neural networks for 2D and 3D image segmentation in PyTorch
tiltstack
stack tilt images into tilt-series, keeping track of metadata
napari-subboxer
A napari plugin for interacting with electron cryotomograms
mrchead
CLI tool for viewing mrc file headers
emanjson2imodxf
Convert tilt-series alignments from EMAN2 to IMOD format.
dynamo2m
Interface the cryo-EM packages warp, dynamo and M
pathlibls
Add convenience methods ls and listdir to Path objects
eulerangles
Simplify the handling of large sets of Euler angles in Python
