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Linux For JediThis course offers to develop and enhance advanced Linux shell command line and scripting skills for the processing and analysis of NGS data. We will work on a HPC server and use linux powerful commands to allow to analyze big amount of biological data. |
Prerequisites
Basic knowledge of Linux (Linux for dummies required)
Program
- Connecting to a distant HPC
- Manipuling large text files
- Complex searching for text in a file
- Using regular expression
- Combining several commands
- Writing simple shell scripts
Learning objectives
After this course, participants should be able to:- Work with larger data sets
- Run existing data analysis tools using the command line
- Using powerful text manipulation tool (sed, ask)
- Chain and combine commands to manipulate complex data
- Perform the same actions on many files
- Write simple bash script
Instructors
- Christine Tranchant - christine.tranchant@ird.fr
- Gautier Sarah - gautier.sarah@cirad.fr
- Ndomassi Tando - ndomassi.tando@ird.fr
- Frederic Mahe - frederic.mahe@cirad.fr
- Valerie Noel - valerie.noel@ird.fr
- François Sabot - françois.sabot@ird.fr
Trainings
| Date | Location | Topics | Parrticipants | Instructors | Units |
| 2022 | Montpellier, France | Linux For Jedi | 20 | Christine Tranchant, Gautier Sarah , Ndomassi Tando | UMR AGAP, DIADE, MIVEGEC, PHIM, transVIH-MI |
| 2019 | Montpellier, France | Linux For Jedi | 20 | Christine Tranchant, Gautier Sarah , Frederic Mahe, Valerie Noel; Ndomassi Tando | UMR AGAP |
| 2018 | Montpellier, France | Linux For Jedi | 24 | GS, Christine Tranchant, Clément Agret, Mariline Summo | UMR AGAP |
| 2018 | Montpellier, France | Linux For Jedi | 20 | Christine Tranchant, Ndomassi Tando, Bruno Granouillac, François Sabot, Gautier Sarah | UMR DIADE, IPME, MIVEGEC, transVIH-MI |