====== Variation calling challenge ======
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|392131 |Mkinen |WS 12/13 |n.V. |[[http://ekvv.uni-bielefeld.de/kvv_publ/publ/vd?id=33919984|ekvv]] |

===== Content of the project =====
You are given reference genome A and simulated short read data D from genome B. Genome B is variant of A with some simulated SNPs, and short and large indels. The task is to reconstruct B' from A and D such that B' is as close to B as possible. The closeness is measured by the alignment score of B’ and B; the alignment is produced by projecting the alignment of B’ to A, given by you, to the alignment of B’ to B through the original generated alignment of A to B. You can use any tools available to produce sequence B’ and its alignment to A. 



===== Organization =====
The dataset can be downloaded {{ 830vccproject2012.zip | here }}. \\  The project lasts 4 weeks and it can be done in small teams.\\  Guidance is offered 2 hours per week.\\  

First meeting is on: Monday 26.11. from 15-17 in U10-155 

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