Course date: 12-16 December 2016
Location : Streatham Campus, University of Exeter
Course open to: All years
Course organiser: David Studholme
Course fee for students not funded through the DTP: £200
Course registration: https://nercdtp.onlinesurveys.ac.uk/bioinformatics-december-2016
Registration deadline: 31 October 2016
Objective: Student to be able to navigate, analyse and manipulate files in a Unix/Linux file-system and be able to automate repetitive tasks using scripts. Student to be able to effectively communicate and collaborate with bioinformaticians in the handling, modelling, and analysis of large-scale biological data. Student to gain experience of bioinformatics tools widely used in handling modern DNA sequencing data.
Composition : Students work through the tasks at their own pace and ask the instructors for help when they get stuck or something is not clear. They will be working on a Linux server, bio-ugserver01.ex.ac.uk or bio-ugserver02.ex.ac.uk . They will access the server via their laptop PC using either a virtual desktop (using X2Go software) or via a simple text-only interface (using Putty software). The instructors will help configure X2Go/Putty to get logged-in to the server.
Section 1: Getting started
|Section 2: Introduction to Unix||
|Section 3: Mapping sequence reads against a reference genome||
|Section 4a: De novo assembly||
|Section 4b: De novo assembly||
|Section 5: Transcriptomics (RNA-seq)||