Detailed information about the course

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Title

Computer Skills for Biological Research: Introduction to GNU/Linux and Bash Scripting

Dates

29 June - 3 July 2020

Responsable de l'activité

Organizer(s)

Dr Mathias Currat, UNIGE

Dr Jose Manuel Nunes, UNIGE

 

Speakers

Dr Mathias Currat, UNIGE

Dr Jose Manuel Nunes, UNIGE

 

Description

This course intends to present useful computer tools and techniques for young researchers in biology that substantially extend basic computer knowledge acquired at undergraduate levels. The course concentrates on GNU/Linux environment and tools because it is powerful, free and easy to install in any kind of computer. Moreover, most of the computer clusters available for scientists run Linux.

 

The course is intended for beginners and for more advanced people, its level of complexity increasing through the five days. Basic knowledge in computing and programming is a plus but is not mandatory. The first part of the course will consist in learning the basic of GNU/Linux: installation of the environment, useful shell commands to work with text files, simple command lines and the use of regular expressions, pipes, and short scripts. The second part will consist in developing more complex scripts, as well as exercises using a computer cluster. Upon conclusion of the course the attendees are expected to be able to:

 

  • use comfortably GNU/Linux workstations environments;
  • work with shells and write shell scripts;
  • manipulate data files and perform file format conversions;
  • be able to read and write simple regular expressions;
  • use GNU/Linux computer clusters.

 

The training will provide a minimal theoretical basis in each of the topics listed below and concentrate on practical aspects through numerous applications. It will confer a working autonomy to solve problems while handling data and conducting data analyses pertinent to the researcher in biology.

 

Topics:

 

  1. GNU/Linux workstation, shell and command line utilities;
  2. Programming in the shell;
  3. Regular expressions;
  4. Working with computer cluster.
Location

University of Geneva

Map

Map

Credits

2.5 ECTS

Evaluation

Full attendance and active participation

 

Information

When?

 

29.06-03.07.2020

 

Where?

 

University of Geneva

 

 

Questions?

 

Marta Bellone

@: ecologie-evolution@cuso.ch

 

Expenses

Reimbursement:

 

PhD students of the DPEE are eligible for reimbursement of incurred travel expenses by train (half-fare card, and 2nd class). Please send the original tickets along with the reimbursement form to:

 

Marta Bellone 

Doctoral Program in Ecology and Evolution 

Department of Biology

University of Fribourg 

Chemin du Musée 10

CH-1700 Fribourg

 

NO reimbursement of your meal expenses

 

Regarding the reimbursement of accommodation, please contact the coordinator of the doctoral program (ecologie-evolution(at)cuso.ch) BEFORE the beginning of the course. NO reimbursement of accommodation without the coordinator of the doctoral program agreement prior of the course.

 

Registration

Through your myCUSO account

 

Priority is given to PhD students of the DPEE until 30th of May, 2020. After this deadline, first comes, first serves! 

 

Places

8

Deadline for registration
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