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 Pedro L Fernandes
Session 2
Affiliation: Instituto Gulbenkian de Ciência

Pedro Fernandes graduated in Electronics and Telecommunications Engineering at IST (U.T. Lisboa). He worked in
Biomedical Engineering, Biophysics and Physiology and changed to Bioinformatics in 1990. He established the first user
community in Portugal around the national service provided by the Portuguese node of the EMBnet. In 1998 he created
the Gulbenkian Training Programme in Bioinformatics. The GTPB has provided user skills to more than 4800 course
attendees throughout its seventeen years of existence. The GTPB has also been used to systematically introduce and test
improvements in training techniques. In 2002, in cooperation with Mario Silva from FCUL, he designed a pioneering
graduate Programme in Bioinformatics, PGBIOINF. He currently teaches Bioinformatics both in graduate and
undergraduate programmes. He is a founding member of the Global Organisation for Bioinformatics Education and
Training – GOBLET. He is the Head of the Education and Training SIG in EMBnet and serves as Training Coordinator for
Portugal in ELIXIR, the organisation that is developing a distributed infrastructure for life-science information in Europe.
He is an invited researcher of the Medical School of the University of Porto, FMUP, where he supports distance learning in
post-graduate courses for physicians and nurses. Researcher ID: A-9618-2010 | ORCID ID: 0000-0003-2124-0241
 Bioinformatics Topics
Informatics Biology
Operating
Systems

Windows, Macintosh both offer an intuitive GUI … familiarity can be assumed?

Linux with a Windows like GUI interface … also, familiarity can be assumed?
 Bioinformatics Topics
Informatics Biology
Operating
Systems

Linux command line! … complexity is overstated, but some instruction is required.

All OS options are conceptually identical … enabling control over files, folders, and programs.

Linux command line! … the only option for compute intense software.
 Bioinformatics Topics
Informatics Biology
Operating Programming
Systems

Rarely is there a need to become a truly proficient programmer.

BUT - Sufficient skill to affect basic management of large datasets is important.

AS IS - Sufficient skill to construct simple customised pipelines.

 Bioinformatics Topics
Informatics Biology
Operating Programming
Systems

Python is currently the most popular Programming Language for Bioinformatics.

The construction of small programs.

Minimal programming skill levels
The understanding of slightly larger programs.
would allow:
Ability to convey program specifications to a specialist.
 Bioinformatics Topics
Informatics Biology
Operating Statistics
Programming
Systems

A basic understanding of Statistics is just as vital when designing an experiment.

“To call in the statistician after the experiment is done may be no more than
asking him to perform a post-mortem examination: he may be able to say
what the experiment died of.”

As it is when large datasets need to be interpreted, which sensibly demands a working

familiarity with a quality Statistical Package.

Bioinformatics software commonly employs statistics to select the most probable answer
from a set of many possible answers to a given question.
End of Part 1
 BREAK!
More to come I fear … but time for a swift cup of tea perchance?

Maybe time for a short jig? The whistling of a merry tune?

Or, mayhap, a delving into the melodic possibilities of youtube?

There be much good stuff there … I offer you a few of my favourites.

Once fully refreshed …. Click on mon braves!