COURSE 1 - Auditorium 1

TITLE
Introduction to Perl for Bioinformatics

PROGRAM
· Language syntax;
· PERL modules for bioinformatics (BioPerl);
· Examples of bioinformatics Perl programs and scripts;

TEACHERS (lattes)
Francisco Pereira Lobo (http://buscatextual.cnpq.br/buscatextual/visualizacv.do?id=K4766710T1)
Marcelo Falsarella Carazzolle (http://buscatextual.cnpq.br/buscatextual/visualizacv.do?id=P322277)
Wagner Arbex (http://buscatextual.cnpq.br/buscatextual/visualizacv.do?metodo=apresentar&id=K4782640E7)

NUMBER OF STUDENTS
20

PREREQUISITES
Basic knowledge of computer programming

LOCAL
Trainning room - Embrapa Informática Agropecuária

DATE
October 15, 16 and 17

TIME
08:00 to 09:00 am

COURSE 2 - Auditorium 2

TITLE
Using the Galaxy platform for RNA-Seq data analysis

PROGRAM
· Introduction to Galaxy and differential RNA-Seq gene expression using Tophat and Cufflinks;
· Quality analysis and NGS read mapping;
· Transcript reconstruction and differential expression analysis;

TEACHERS (lattes)
Adhemar Zerlotini Neto (http://buscatextual.cnpq.br/buscatextual/visualizacv.do?id=C800788)
Francisco Pereira Lobo (http://buscatextual.cnpq.br/buscatextual/visualizacv.do?id=K4766710T1)
Felipe Rodrigues da Silva (http://buscatextual.cnpq.br/buscatextual/visualizacv.do?id=K4733948J9)

NUMBER OF STUDENTS
20

PREREQUISITES
Basic knowledge of NGS platforms for RNA-Seq analysis (data generation, read mapping to reference genomes, transcript and isoform dettermination, differential expression calculation). Recomended articles:

http://genomebiology.com/2010/11/8/R86
http://www.nature.com/nprot/journal/v7/n3/full/nprot.2012.016.html

LOCAL
Yet-to-be-chosen room on Embrapa Informática Agropecuária

DATE
October 15, 16 and 17

TIME
08:00 to 09:00 am
 

COURSE 3 - Auditorium 3

TITLE
How to set up a high performance computer cluster. 

PROGRAM
•What is a high performance cluster;
•Architecture of a Beowulf cluster;
•Cluster installation, configuration and management;
•The PBS queue management system.

TEACHERS (lattes)
Horacio Montenegro (http://lattes.cnpq.br/4815461333586784)
Marcelo Mendes Brandão (http://lattes.cnpq.br/2063196567079634)

NUMBER OF STUDENTS
20

PREREQUISITES
Basic notions of Linux, systems and network management.

LOCAL
To be decided

DATE
October 15, 16 and 17

TIME
08:00 to 09:00 am