IBD Status applet
I've just released an applet called IBDStatus. This applet (java 6 is required) is freely available at:
This applet takes as input the breakpoint analysis data (Nature. Dib et al.(1996); 380:152-154) from the 'Fondation Jean-Dausset' (CEPH) and display the Identical By Descent (IBD) regions between a pair of related individuals. Two people share an allele identical by descent if the two copies of the allele were inherited from a common ancestor. A pair of siblings can share 0, 1, or 2 alleles:
- 0: not the same alleles
- 1: only one allele in common
- 2: both same alleles
As an example, this IBD status can be used to design the controls of a CGH assay.
- Top left pane: a linkage table with genotype=f(individual,marker)
- Middle left pane: the list of individual: using the Ctrl-key select
two related
individuals an press the Add sib button. Your new pair is added in
the bottom left table. - Bottom left pane: the list of sib-pairs: for each pair, the IBD status
is displayed in the right table - Right table:
- Marker index
- chromosome
- STS D-Number
- Start-position (build 36)
- End-position (build 36)
- IBD status of each sib-pair(if any)
- Count IBD with unknown status
- Count IBD. 0
- Count IBD. 1
- Count IBD. 2
I wrote this software a few monthes ago but it was not much used, so I
was given the permission to release this version to the community.
Enjoy.
Pierre
