The output VCF uses commas to separate values within the EXOMISER_ACMG_EVIDENCE field of the Exomiser INFO key. Could this be switched to a different delimiter? -, &, /, \?
|
.collect(Collectors.joining(",")); |
This breaks spec compliance which says "commas are permitted only as delimiters for lists of values" (Exomiser also does this for the different MOIs considered). And, means pysam can't read an exomiser VCF.
The output VCF uses commas to separate values within the
EXOMISER_ACMG_EVIDENCEfield of theExomiserINFO key. Could this be switched to a different delimiter?-,&,/,\?Exomiser/exomiser-core/src/main/java/org/monarchinitiative/exomiser/core/writers/VcfResultsWriter.java
Line 234 in 495f09b
This breaks spec compliance which says "commas are permitted only as delimiters for lists of values" (Exomiser also does this for the different MOIs considered). And, means pysam can't read an exomiser VCF.