NBAF Bio-Linux Course
This two day course comprises introductory sessions delivered by Tim Booth and Mesude Bicak
from NBAF-W plus invited talks and tutorials from speakers presenting their own bioinformatics
tools in a Bio-Linux environment. It will benefit anyone looking to do bioinformatics work in a Linux environment, in particular anyone working with high throughput sequencing data.
No prior knowledge of Linux is required.
What is Bio-Linux? Bio-Linux 6.0 is a fully featured, powerful, configurable and easy to maintain bioinformatics workstation. Bio-Linux provides more than 500 bioinformatics programs on an Ubuntu
Linux 10.04 base. There is a graphical menu for bioinformatics programs, as well as easy access to the Bio-Linux bioinformatics documentation system and sample data useful for testing programs.
Bio-Linux is free to download from the NEBC website and runs on most PCs.
| Times | Topic | Trainer |
|---|---|---|
| Monday 2nd April 2012 | ||
| 09:45-10:15 | Registration Welcome | |
| 10:15-10:30 | Talk 1 (Introduction to Linux and Bio-Linux, course overview) |
|
| 10:30-10:45 | Coffee/Tea Break | |
| 10:45-12:15 | Exercises part 1 (General Linux, self study and exercises) |
|
| 12:15-13:00 | Talk 2 (Review of key concepts+File permissions + Orientation in the Linux file system) |
|
| 13:00-14:00 | Lunch | |
| 14:00-14:20 | Talk 3 (Intro to Bioinformatics section of the course +QIIME Demo) |
|
| 14:20-14:45 | Talk 4 (MrBayes Demo) |
|
| 14:40-15:15 | Exercises part 2 (Bioinformatics tools, self-study and exercises | |
| 15:15-15:30 | Coffee/Tea Break | |
| 15:30-16:00 | Exercises part 2 (Bioinformatics tools, self-study and exercises continued | |
| 16:00-16:15 | Concluding talk 5 (Installing software, wrap-up, further reading) |
|
| 16:15-17:00 | Extra time (Time to finish exercises, discuss user questions) | |
| Tuesday 3rd April 2012 - tbc | ||
| 09:00-09:30 | Welcome and introduction | |
| 09:30-10:30 | Artemis + ACT tutorial | |
| 10:30-10:45 | Coffee/Tea Break | |
| 10:45-11:45 | Artemis + ACT continued | |
| 11:45-12:15 | FastQC demonstration | |
| 12:15-12:45 | TBC | |
| 12:45-13:45 | Lunch | |
| 13:45-??:?? | EMBOSS tutorial | |
| ??:??-16:00 | TBC | |
Registration Fees £60
Registration
Please note that the registration fee includes:
* Meals at EBI (refreshments breaks and lunch)
* Course materials & USB stick
* Use of EBI IT Training Room computer during the 2 day course
All delegates will need to arrange and pay for their own travel to and from the course and accommodation if required on the night on 2nd April.We recommend booking your accommodation at the Wellcome Trust Conference Centre. Your credit card details will be required in order to secure the booking. Rooms are limited and are on a first come first serve basis, therefore we recommend booking early.
There will be a maximum of 26 participants on this course and registration is on a first come first serve basis. Registration will close on Friday 2nd March 2012 @ 12:00 (midday) GMT.
To register for this workshop please use the following link (Items marked * are mandatory. Incomplete registrations will not be processed). You will need to pay by credit card as you submit your registration, therefore please have your card to hand.
This course will take place in the EMBL-EBI IT Training room which has 40 computers set up with the relevant disk images required for this course.
We recommend participants who require any additional nights accommodation book at the Wellcome Trust Conference Centre, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK.