Fast4DRegistration

Fast4DReg: Fast registration of 4D microscopy datasets
Pylvänäinen J.W et al, 2023

Fast4DReg is a Fiji macro for drift correction in 3D video and is able to correct drift in all x-, y- and/or z-directions. Fast4DReg creates intensity projections along both axes and estimates their drift based on cross-correlation, and then translates the 3D video frame by frame. Additionally, Fast4DReg can be used for aligning multichannel 3D images which is particularly useful for instruments that suffer from a misalignment of channels.

GitHub repository: https://github.com/guijacquemet/Fast4DReg

Datasets are available in Zenodo: 

1 Software archive
1.1 Fast4DReg scripts (5)
1.2 Helper scripts (2)
1.3 Documentation from GitHub

2 Dataset 1: Synthetic drift -datasets
2.1 Synthetic drift files (2)
2.2 Expected results (3)

3 Dataset 2: Noisy images -dataset
3.1 Noisy dataset files (12)
3.2 Average corrected apply output (12)
3.4 Maximum corrected apply output (12)

4 Dataset 3: HUVEC monolayer -dataset
4.1 HUVEC -dataset channel 1 original
4.2 Biological dataset HUVEC channel 1 Fast4DReg
4.3 Biological dataset HUVEC channel 1 C3DD

5 Dataset 4: Mouse lung slice -dataset
5.1 Mouse lung slice original
5.2 Mouse lung slice Fast4DReg

6 Dataset 5: Calibration slide -dataset
6.1 Calibration slide -dataset original
6.2 Calibration slide -dataset Fast4DReg

7 Dataset 6: Filopodia-dataset -dataset
7.1 Filopodia-dataset original
7.2 Filopodia-dataset Fast4DReg

8 Dataset 7: DCIS.com Filopodia -dataset
8.1 DCIS.com Filopodia -dataset original
8.2 DCIS.com Filopodia -dataset Fast4DReg

7 Videos
7.1 Video 1
7.2 Video 2
7.3 Video 3
7.4 Video 4
7.5 Video 5