Using Scipion for stream image processing at Cryo-EM facilities

Three dimensional electron microscopy is becoming a very data-intensive field in which vast amounts of experimental images are acquired at high speed. To manage such large-scale projects, we had previously developed a modular workflow system called Scipion (de la Rosa-Trevín et al., 2016). We presen...

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Detalles Bibliográficos
Autores: Gómez-Blanco, Josué, Rosa-Trevín, J. M. de la, Marabini, Roberto, Caño, Laura del, Jiménez, A., Martínez, Marta, Melero, Roberto, Majtner, T., Maluenda, D., Mota, J., Rancel, Y., Ramírez-Aportela, Erney, Vilas, J. L., Carroni, M., Fleischmann, S., Lindahl, E., Ashton, A. W., Basham, M., Clare, D. K., Savage, K., Siebert, C. A., Sharov, G. G., Sorzano, Carlos Óscar S., Conesa Mingo, Pablo, Carazo, José M.
Tipo de recurso: artículo
Fecha de publicación:2018
País:España
Institución:Consejo Superior de Investigaciones Científicas (CSIC)
Repositorio:DIGITAL.CSIC. Repositorio Institucional del CSIC
OAI Identifier:oai:digital.csic.es:10261/172712
Acceso en línea:http://hdl.handle.net/10261/172712
Access Level:acceso abierto
Palabra clave:Electron microscopy
Streaming
Image processing
Live processing
High throughput
Scipion
Descripción
Sumario:Three dimensional electron microscopy is becoming a very data-intensive field in which vast amounts of experimental images are acquired at high speed. To manage such large-scale projects, we had previously developed a modular workflow system called Scipion (de la Rosa-Trevín et al., 2016). We present here a major extension of Scipion that allows processing of EM images while the data is being acquired. This approach helps to detect problems at early stages, saves computing time and provides users with a detailed evaluation of the data quality before the acquisition is finished. At present, Scipion has been deployed and is in production mode in seven Cryo-EM facilities throughout the world.

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