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OVERVIEW

This is an on-line course on the fundamentals of open-source programming. It will help biologists understand how and when to use standard programming methods to solve computational biology problems, whether sequence analysis, gene expression, mass spectrometry, or systems biology. Armed with some knowledge and hands-on experience with these tools, scientists will be able to perform basic software development tasks and phrase research questions in the context of these tools. As a result, they will be able to appreciate and use computers better in their organization and communicate better with their IT group. This course also serves as a preparation for more advanced programming courses at Bioinformatics.Org.

TOPICS

This course is modularized so that researchers can understand two distinct tools: a scripting language such as Perl, and a data analysis/visualization language such as R.

The first part of the course will cover the basics of Perl, including installing and running simple Perl scripts; variables (scalars, arrays); variable interpolation; printing; string operations; mathematical, conditional and logical operators; file input/output; loops (if-then-else, for, while); list operations; regular expressions; and functions. BioPerl will also be introduced. Afterward, students will be assigned a Perl project.

The second part of the course will cover the basics of R, including installing and running R; understanding the R interactive environment; creating, storing and manipulating R data objects; reading data from files; applying built-in functions on data; for-loops; if-then-else statements; scripts; functions; and packages. Bioconductor will also be introduced. Afterward, students will be assigned an R project.

SCHEDULE

The course will run during the week of January 8 with about 3 hours of instruction starting at 16:30 UTC each day.

FOR MORE INFORMATION

To find out more information on the course, including the registration process, please see the course schedule page:
http://edu.bioinformatics.org/AB

Also of note, this course introduces the "full-time student" tuition rate, which is just one-third of the commercial rate.

Discussion forums: Education: Introduction to Bioinformatics Programming: Perl & R for Biologists, Level 1

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too expensive :(

Submitted by Giovanni M. Dall'Olio; posted on Tuesday, December 19, 2006

I think it's really too expensive, 199 euro for a 4-days course about the very basics of perl and R. You can find good tutorials for free in the net for these, or you can simply read the docs which came with this program when you download them.

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too expensive :(

Submitted by Giovanni M. Dall'Olio; posted on Tuesday, December 19, 2006

Re: too expensive :(

Submitted by J.W. Bizzaro; posted on Wednesday, December 20, 2006

Actually, it's 199 USD, which works out to about 150 EUR. The price is similar to other science workshops (the examples given use biological data), for which people could still download documentation. And it is 5 days long, not 4.