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ignore filtered SVs in sveval

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Heng Li
2024-04-07 17:12:31 -04:00
parent 8170693de3
commit 0cc3cdca27
1 changed files with 1 additions and 0 deletions
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misc/paftools.js
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@@ -3240,6 +3240,7 @@ function paf_sveval(args)
if (bed != null && bed[t[0]] == null) continue; if (bed != null && bed[t[0]] == null) continue;
if (t[4] == '<INV>' || t[4] == '<INVDUP>') continue; // no inversion if (t[4] == '<INV>' || t[4] == '<INVDUP>') continue; // no inversion
if (/[\[\]]/.test(t[4])) continue; // no break points if (/[\[\]]/.test(t[4])) continue; // no break points
if (t[6] != "." && t[6] != "PASS") continue;
var st = parseInt(t[1]) - 1, en = st + t[3].length; var st = parseInt(t[1]) - 1, en = st + t[3].length;
// parse svlen // parse svlen
var b = _paf_get_alen(t), svlen = b[0]; var b = _paf_get_alen(t), svlen = b[0];