Troubleshooting

Report and troubleshoot errors encountered when processing data.

Install, Configure and Update

How to install, configure and update cryoSPARC on a workstation or cluster. Please refer to these instructions first.

Motion Correction

Questions, discussion and errors encountered when performing global (rigid) and local (per particle) motion correction.

Utilities

For discussion about Volume Tools, Sharpening Tools, Particle Sets Tools, Exposure Sets Tools.

Features and Functionality

Requests for new jobs and features in cryoSPARC. If you have questions about an existing job or feature, please submit them under the appropriate category (e.g., 3D reconstruction, CryoSPARC Parameters, etc.).

Import and Export

Questions, discussion and errors encountered when importing and exporting movies, micrographs, particles, volumes and other files.

3D Refinement

Questions, discussion and errors relating to homogeneous and heterogeneous (multi-reference) refinement, and non-uniform refinement.

3D Variability Analysis

Questions and discussion regarding the 3D variability analysis job.

Local Refinement

Questions, discussion and errors encountered when using local refinement and signal subtraction.

Tips

Best practices and how-tos for using and getting the most out of cryoSPARC.

Particle Picking

Questions, discussion and error messages relating to manual and template based automatic particle picking, and particle extraction.

2D Classification

Questions, discussion and error messages relating to 2D classification of particles.

Exposure Curation

Questions, discussion and error messages arising when curating and inspecting micrographs.

CTF Estimation

Questions, discussion and errors encountered when estimating CTF values.

Hardware and Performance

Questions and discussion relating to hardware setup and cryoSPARC performance.

Cryo-EM Data Processing

General questions and discussion relating to cryo-EM image processing and methods.

Post Processing

Questions, discussion and errors relating to post processing job types, including local resolution estimation, local filtering, align 3D maps, reslog type analysis, and 3DFSC analysis. Also for utilities such as volume tools and sharpening.

3D Reconstruction

Questions, discussion and errors encountered when performing homogeneous and heterogeneous ab-initio reconstruction.

CryoSPARC Parameters

Questions about job parameters and how to optimize these.