Algotom

- Add module vertrec.py for direct vertical slice reconstructions: single slice, multiple slices, and multiple slices at different orientations; and
methods for finding the center of rotation using vertical slices.
- Enable parallel computing for image-stitching-related methods in calculation.py module.
- Add “sharpness” metric to auto-finding center method.
- Add back-projection filtering (BPF) method.
- Update method for processing slices in parallel.
- Move methods for finding center of rotation in the reconstruction space from utility.py to reconstruction.py.
- Add method for emulating HDF object giving the input is a folder of tif files.

- Add calibration methods for tomography alignment.
- Add extra options for methods in the reconstruction module and post-processing method.
- Fix a bug in the method of reslicing 3d tif data.
- Cast to float32 for stack-loader.

- Add methods for loading and saving multiple tiff images in parallel
- Fix bugs.

- New methods: upsampling sinogram, reslicing 3D image, finding rotation axis using slice metrics, visually finding rotation axis in sinogram space and reconstruction space.
- Method improvement: able to reconstruct a chunks of sinograms, faster FBP-CPU method, more options for find_center_vo, add rescaling-option for downsampling method, cropping-option for downsampling and rescaling methods,
- Updates: add more tests, improve coverage, update loadersaver module, add/update examples, replace scipy.interp2d (to be deprecated) by scipy.RectBivariateSpline.

Add the UMPA method and its supporting functions

- Add methods for speckle-based phase-contrast tomography:
+ Loaders for loading stacks of images, tomographic datasets.
+ Correlation-based methods for finding local/global shifts between images.
+ Surface reconstruction methods.
+ Image alignment.

- Add phase.py module:
+ Phase unwrapping methods
+ Phase retrieval methods for speckle-based imaging