All algorithms
Motion correction
Stage
1
of 8
Included on all plans
CryoCloud MotionCorr
Beam-induced motion corrected patch by patch, with dose weighting applied frame by frame, so high-resolution signal survives into the reconstruction instead of being averaged away.
3- 4x
Faster than RELION's CPU motion correction
5,000
Movies per hour, at peak
What it does
Every movie a microscope records contains motion. The stage drifts, and the beam itself moves the specimen inside the ice, most of it in the first few frames, which is where the high-resolution signal is strongest. CryoCloud MotionCorr aligns the frames of each movie before they are averaged, then weights each frame by the dose it has received. Early frames contribute their fine detail; later frames contribute only the low-resolution signal they still hold. The result is a single micrograph that keeps high-resolution information.
How it works
The micrograph is divided into patches, and each patch is tracked independently. That captures the local, non-uniform component of the motion that a single global alignment cannot resolve. Per-patch trajectories are then fitted to a smooth surface, so a noisy estimate from one patch is constrained by its neighbours rather than trusted on its own. Dose weighting follows the standard exposure-dependent resolution model: each frame is low-pass filtered according to its accumulated dose before summation. It runs on GPU
Results page of the Motion Correction job inside the CryoCloud app visualizing the motion tracks of each patch on the left and showing statistics for the seleted movie on the right.
Where it sits
Motion Correction is the first job in the workflow. The same physical problem that is addressed by motion correction returns at the end of the workflow at a finer scale: once particles are refined to a high ersolution reconstruction, CryoCloud Polishing refines the motion of each particle individually rather than each patch.
At a glance
Stage
Motion correction
Runs
As the first job in the workflow
Hardware
GPU
Inputs
Multi-frame movies, gain reference
Outputs
Aligned micrographs
Per-patch motion trajectories and a per-movie total motion figure are written alongside.
Replaces
MotionCor2, RELION motion correction
Availability
Included
Every plan, including the free tier, runs MotionCorr on every movie you upload.
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Next in the workflow
Pre-processing
Patch-based CTF Estimation
Patch-based estimation with local defocus per micrograph.
Particle picking
CryoCloud Picker
Generalised ML particle picker with higher accuracy, no per-dataset training.
Post-processing
CryoCloud Polishing
Per-particle motion refinement for the last stretch of resolution.