The first I2PC Developer Workshop will take place in Madrid, 6th and 7th of February. The main objective is to standardize information exchange in Single Particles as well as to start a dynamic of algorithm benchmarking in the field. Concrete conclussions on data interchange were reached and a first benchmarking challenge was issued to the community.
- Jose Maria Carazo
- Introduction and setting the goals and expectation of this meeting.
Benchmarks
- Wah Chiu
- Report on Map and Model Validation (from the Validation Task Force)
- Christian Blaschke
- Introduction to Bechmarking (I): The current situation in Bioinformatics
- Adrian Quintana
- Introduction to Bechmarking (II): The current situation in other imaging communities
- Anchi Cheng
- Presentation of Past Particle Picking Benchmark
- Steven Ludtke
- Presentation of Past Modeling Challenge
- Carlos Oscar Sorzano Sanchez
- Presentation of Past EU NoE ‘intended Benchmark’
- Adrian Quintana
- Presentation of I2PC Prototype Benchmark Platform
- Wah Chiu
- Discussion & Conclussions on Benchmark activities in 3DEM
Workflows in Single Particle
- Carlos Oscar Sorzano Sanchez
- Setting the scene
- Standardized Workflows
- Robert Langlois
- Workflows in Spider
- Roberto Marabini
- Workflows in XMIPP
- Steven Ludtke
- Workflows in EMAN
- Bernard Heymann
- Workflows in Bsoft
- Marin van Heel
- Workflows in Imagic
- Anchi Cheng
- Workflows in Appion
- Adrian Quintana
- Workflows in Scipion
- Jose Maria Carazo
- Discussion & Conclussions on Workflows
- Roberto Marabini
- Conclussions on Workflows
Ontologies and Vocabularies
- Roberto Marabini
- General presentation on Ontologies and information organization. Presentation of the Scipion Ontology
- John Westbrook
- Vocabularies and Ontologies. The case of the EMDB submission vocabulary
- Steven Ludtke
- Presentation of the EMEN Ontology (I & II
- Jose Maria Carazo & Roberto Marabini
- Discussion on Ontologies