Vidjil – Analyzed human locus
The Vidjil web application is able to display multi-locus data, as long as this information
is provided in the
.vidjil file computed by the analysis program.
The Vidjil algorithm currently analyzes the following locus,
selecting the best locus for each read.
The configuration of analyzed locus is done in the
|complete recombinations||incomplete/special recombinations|
|TRD||Vd-(Dd)-Jd||TRD+||Vd-Dd3, Dd2-Jd, Dd2-Dd3|
The detection of complete recombinations is reliable and should work provided that the reads are long enough (especially the J region).
The detection of incomplete/special recombinaisons is more challenging and may fail in some cases. In particular, as D genes may be very short, detecting TRD+ (Dd2/Dd3) and IGH+ (Dh-Jh) recombinations require to have reads with fairly conserved D genes or up/downstream regions.
-2 command line option and the
multi+inc+xxx server configuration try to
detect unexpected or chimeric recombinations between genes of different germlines or on different
strands (such as +V/-V recombinations).
These recombinations, tagged as
xxx, can be technological artefacts or unusual biological recombinations.