admin

I2PC Seminar Series 2024

Instruct Image Processing Center 2024 Seminar Series Banner

The Instruct i2PC from Instruct Spain is organizing the fifth edition of a seminar series on cryoEM and cryoET methods for image processing. We will be gathering expert developers and users so new and existing methods can gain visibility and users can understand the applications and mechanisms of the presented algorithms.

The webinars will be held online without registration, and they are free. You can join the session and launch questions to the speakers through next link:
https://conectaha.csic.es/b/bla-rkh-dqa-rpn

The contents and speakers will be:

3rd October (10:00 CET Madrid) – Szu-Chi Chung, Department of Applied Mathematics, National Sun Yat-sen University, No. 70, Lienhai Rd, Kaohsiung, Taiwan – Cryo-forum: A processing framework for orientation information recovery with uncertainty measure and its application in cryo-EM image analysis.

2nd December (11:00 CET Madrid) – Andreas Engel, Case Western Reserver University, Switzerland – Robotic grid preparation of vitrified biomolecules from nano litre volumes.

16th December (15:00 CET Madrid) – Joey Davis, Department of Biology, Massachusetts Institute of Technology, Cambridge, MA, USA – Learning structural heterogeneity from cryo-electron sub-tomograms with tomoDRGN.

More speakers and talks are still to be determined for this seminar series. Please stay tuned for more information.

See you there!

CORBEL launches 1st Open Call for research projects

CORBEL – Coordinated Research Infrastructures Building Enduring Life-science services – is an EC Horizon2020 project uniting 11 Biological and Medical Science Research Infrastructures (RIs). In CORBEL, the participating RIs expand their cooperation in order to harmonise researchers’ access to their cutting-edge technologies and services by establishing a sustainable platform of aligned services that will enable faster admission to and a wider portfolio of technologies and services to boost research projects.

The CORBEL Open Call invites researchers to apply to access technologies and services from more than 15 facilities from eight different research infrastructures across Europe. Selected projects will be allocated to so-called Access Tracks and gain unprecedented opportunities to utilise a wide range of high-end technologies and services. These include state-of-the-art offers from the fields of advanced imaging, biobanking, curated databases, marine model organisms, mouse mutant phenotyping, screening and medicinal chemistry, structural biology as well as systems biology.

Projects will be supported at every stage, with CORBEL project managers on hand to help scientists navigate between different service providers and exploit the full potential of the offers available.

Learn more about the CORBEL Open Call by visiting our website (http://www.corbel-project.eu/1st-open-call.html).

Instruct Biennial Structural Biology Meeting #IBSBM2017

Brno, Czech Republic, 24th to 26th May 2017

Instruct Biennial Structural Biology Meeting will be held at the International Best Western Hotel, Brno, CzechRepublic. The meeting will showcase integrative structural biology and its impact on biological research. The program will include sessions that represent recent advances in structural biology towards cellular biology, emerging methods and technologies and results of biomedical importance. Young scientists who want to know what structural biology can offer for their research and what are the future trends, are especially encouraged to attend.

Register today

Instruct is a distributed European Research Infrastructure, which provides scientists with access to all major cutting edge technologies that enable biomacromolecular structure determination at atomic resolution. Access to all of these technologies has been available to European member researchers from February 2012

First iNEXT All Hands Meeting

First iNEXT All Hands Meeting. Madrid, 19 – 21 October, 2016.

AHM 2016 is the first annual meeting of iNEXT. It aims at gathering not only iNEXT Partners, but also iNEXT Users (or intended users) contacted directly by the different Facilities in the project. iNEXT Partners, together with the Scientific Advisory Board and the Industry Panel, will review the work performed in the project, including its different Joint Research Activities. iNEXT meeting web page

I2PC-CCISB hands on spring course

From 2D images to 3D structures: A practical course on Electron Microscopy Single Particle Analysis. Madrid, May 17 – 20, 2016

A joint computational course between the Instruct Image Processing Center (I2PC) and the Collaborative Computational Project for Electron cryo-Microscopy (CCP-EM, a member of CCISB). Tutors from Spain and the UK will address the complete image processing workflow typical for macromolecular structural determination, from processing the raw images taken on the electron microscope to the interpretation of the derived 3D volumetric structure.

Scipion v1.0.0 released

We are proud to announce the release of Scipion v1.0.0, our software workflow framework to obtain 3D maps of macromolecular complexes that integrates multiple EM software packages.

Scipion is open-source software and can be freely downloaded from Scipion web site. There you will also find the Installation instructions

Scipion’s main features

  1. Integration and Interoperability: Scipion transparently integrates several software packages such as: Xmipp, Relion, Spider, Eman, Sparx, Frealign and Ctffind, among others. Scipion  allows users to easily combine different programs in the same project in the form of a graphical workflow. All required format conversions are done automatically. More than 100 protocols are currently implemented, see the full list of protocols
  2. Traceability and Reproducibility: all parameters used and steps performed are stored! The entire workflow is presented as a tree or as a list. Several steps can be copied and re-executed with different parameters. The workflow, or part of it, can be exported to a template that can imported into a different project. The workflow templateis a text file that can be easily shared (email, http, etc)
  3. Graphical tools: Scipion comes with several built-in graphical tools. All protocols are executed from a form that provides validation and help messages for each parameter. Integrated data viewers can visualize images, volumes, micrographs and their related metadata (shifts, angles, weights, etc). This data viewer is very useful for sets manipulation, also stored as steps in the project history.
  4. Automation and API: all operations can be done from the GUI or from Python scripts. This includes creating a new project, launching runs and repeating previous runs, among others. Developers also have Python libraries to operate with images and metadata files.
  5. Extensibility: Scipion is designed with extensibility in mind. As a result, new algorithms and visualization tools can be added with relative small effort. Everyone is welcome to contribute. A good starting point is the tutorials page.

During this year we will have multiple Scipion workshops. Do not miss your next one!

Instruct call for proposals

Instruct has 16 Instruct Centres in Europe and Israel offering access to a full range of advanced technologies and expert support.

Access to the infrastructure at Instruct Centres is provided for all Instruct members and there are no charges (consumable costs, accommodation and travel are supported by Instruct funds, up to a maximum of €1100 per visit).

The deadline for this round of proposal submission is 5pm CET, Thursday 30th April 2015. Submit your proposal.