NGS data CRAMing, Archiving & Exploring

Date:

  Wednesday 2 April 2014

Venue: 

European Bioinformatics Institute (EMBL-EBI) - Wellcome Genome Campus, Hinxton, Cambridge,  CB10 1SD, United Kingdom

Application deadline: 

Tuesday 25 March 2014

Participation: 

Open application with selection

Contact: 

Sheila Plaister

Registration fee: 

£ free

Registration closed

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Overview

This course will provide an opportunity for bench biologists and bioinformaticians to discuss technological advances in their field as well as approaches to handling, archiving and analysing data for effective public dissemination of their research, in a way which is reproducible and comparable on a global scale.

 

Audience

The workshop is aimed at scientists and technical persons from active sequencing groups.

The purpose of this course is to provide an opportunity for attendants to use their experience of high throughput data generation to advise the service team and make recommendations about the optimal presentation of their data.

Syllabus, tools and resources

During this course you will learn about:

  • Public repositories for nucleotide sequence data
  • NGS data

Outcomes

After this course participants will be able to:

  • Upload, submit, archive and explore NGS data
  • Describe how INSDC services can aid in the management and global communication of data
  • Share problems and solutions with colleagues in other NGS fields
  • Discuss the sequencing landscape and how their projects fit into it

Programme

Time Topic Trainer
Day 1 - 2 April 2014
09:30 – 10:30 Registration + Coffee/tea Sheila Plaister
10:30 - 11:15 Introduction to ENA Guy Cochrane/ Marc Rossello
11:15 - 12:00 Data Model (game) Marc Rossello / Rajesh Radhakrishnan
12:00 - 12:30 CRAM introduction Vadim Zalunin
12:30 - 13:30 Lunch and networking  
13:30 - 14:00 CRAM hands-on Vadim Zalunin/ Rajesh Radhakrishnan
14:00 - 14:20 Submissions (lecture) Marc Rossello
14:20 - 15:15 Submissions & Archiving (hands-on) Rajesh Radhakrishnan
15:15- 15:45 Coffee/Tea  
15:45 - 16:45 Exploring NGS data (Lecture  + Hands-on) Marc Rossello / Nicole Silvester
16:45 - 17:00 Quiz + Wrap up Marc Rossello
17:00 -17:15 Feedback Rajesh Radhakrishnan