Introduction to Linux for Genomics, 9-10 June 2025

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Edinburgh Genomics: Introduction to Linux for Genomics

Genomic studies produce vast amounts of data, usually in the form of very large text files. Linux is particularly suited to working with such files, and is therefore arguably one of the most important tools in a bioinformatician’s toolkit. The Linux command-line enables one to view,
filter and manipulate large text files that are difficult or impossible to handle with applications like Word or Excel, write pipelines to mperform certain tasks, and run bioinformatics software for which no web interface is available. In this workshop, we will first cover the most used Linux commands, followed by a short introduction to several popular command-line tools that were specially developed for genomics as well as file formats commonly used in genomics (BED, FASTA, FASTQ, GFF/GTF, SAM/BAM, VCF).

Instructor: Tim Booth

Workshop format
The workshop consists of guided tutorials and hands-on exercises. Roughly 3/4 of the workshop will be spent on Linux and 1/4 on command-line tools for genomics and file formats.

Who should attend
Graduates, postgraduates, and PIs, without any previous command-line experience.

Requirements
A general understanding of molecular biology and genomics and elementary skills in computer usage are required. A computer with stable internet connection and small VNC viewer software (download instructions included)