Workflows

workflow_name (# downloads, # views, scipion version)
SemiAutomaticPicking_Xmipp_Cryolo (49, 290, scipion2 scipion3): Semi automatic picking module using Xmipp and Cryolo, and making an AND consensus. By default, the input micrographs are preprocessed in order to remove hot pixels and to downsample them to simplify the 2D analysis. Also, by default, the particle...
ARM_gain_test1 (47, 296, v2.0 (2019-04-08) Diocletian (release-2.0.0 37dd28f)): Adapted SerialEM-based workflow with NON corrected GAIN from K3
Cryo electron microscopy of SARS-CoV-2 spike in prefusion state (35, 356, 1.0): Workflow associated to empiar entry 10516 and publication https://doi.org/10.1101/2020.07.08.191072
Reprocessing of EMPIAR-10389 data (urease) with Scipion (31, 311, 1): Scipion workflow from: Using Relion software within Scipion framework Grigory Sharov, Dustin R. Morado, Marta Carroni, José Miguel de la Rosa-Trevín bioRxiv 2020.12.06.399808; doi: https://doi.org/10.1101/2020.12.06.399808
Full SPA image processing of a EMPIAR entry (31, 191, 3.0.0): Full EMPIAR image processing. It does not require manual selection although you might need to review parameters before launching the protocols
Spike (29, 219, 3.0.0): Workflow Roberto
preprocesing&2Dclass (27, 248, 3.0.0): Roberto to arm
empiar-10180 copy (25, 244, v2.0 (2019-04-23) Diocletian): test
20190805_fraction16 (25, 230, v2.0 (2019-04-23) Diocletian): test
Day 1 alignment and reconstruction (24, 139, 3.0.0): Workflow shown and practiced during 2021 tomography course on Day 1 Tilt series alignment and tomogram reconstruction