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obiba / genobyte

GenoByte is a Java API for storing and querying data resulting from the aggregation of high-throughput genotyping experiments across many subjects.
GNU General Public License v3.0
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GEN-30: Mendelian inconsistencies calculation bug for trios #15

Closed ymarcon closed 6 years ago

ymarcon commented 16 years ago

Jira issue originally created by user @plaflamme:

Consider these call vectors:

Child: A A A A Mother: B B ? ? Father: ? ? B B

Where ? represents a missing call (not a U, but an actual NULL).

The current calculator will report inconsistencies for the whole trio even though the trio is missing a genotype (from either the mother or the father).

The proper reporting would be to report inconsistencies on duos only...

ymarcon commented 16 years ago

Comment created by @plaflamme:

Move to 1.4.2 release do we can release the case-control analysis even though this minor bug still exists.

ymarcon commented 16 years ago

Comment created by dbujold:

Fixed by excluding all assay records from trio checks results and rechecking them after, as duo checks.

ymarcon commented 16 years ago

Issue was closed with resolution "Fixed"