This “Sed and AWK to modify large text files” training session is organized by the Genotoul bioinfo platform.

The Linux sed command is a powerful and very fast text editor without an interface. Sed can select, substitute, add, delete, and modify text in files and streams. Sed relies heavily on regular expressions for pattern matching and text selection. We’ll manipulate regexes and the sed command to modify and filter several type of file often used in bioinformatics.

AWK enables to easily process columns in large text files but is also a quite powerfull programming language. This training session aims at introducing you AWK principles. You will learn about variables, operators and functions useful to manipulate very large files.

For example you can use AWK to generate your unix command lines to be launched on the cluster. AWK enables to process millions of lines in text files. The course includes short feature presentations between long hands-on sessions in which you will be able to understand the global ideas as well as details.