Commit 79ce5bec authored by Mathieu Giraud's avatar Mathieu Giraud

core/germline.cpp, germline/germlines.data: seed for VdJa to 's13'

VdJa should be better tuned.

VdJa previously used the 's10' spaced seed, as TRD. This was curious, as TRA is using 's13'.
Using also 's13' for VdJa is more conservative, and produces less false positives in our internal test suite.

We should have one day a better way to tune all germlines parameters at once.
parent 51224b16
......@@ -198,7 +198,7 @@ void MultiGermline::build_incomplete_set(string path)
// VD-JA
germline = new Germline("VdJa", 'a', path + "/TRDV.fa", "", path + "/TRAJ.fa", -10, 80);
germline->new_index("#####-#####");
germline->new_index("#######-######");
germlines.push_back(germline);
// DD2-DD3
......
......@@ -53,7 +53,7 @@ germline_data = {
"5": ["TRDV.fa"],
"3": ["TRAJ.fa"],
"parameters": {
"seed": "10s"
"seed": "13s"
}
},
......
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