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xml_to_bas.pl - detect readgroup id clashes and attempt to reconcile #54

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keiranmraine opened this issue Dec 15, 2014 · 1 comment
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@keiranmraine
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If ID field of RG header is not unique within the sample prior to merging it is modified during the merge step. In most cases in PanCancer this can be resolved by correlating on PU tag instead.

Example of bad XML:

https://gtrepo-ebi.annailabs.com/cghub/metadata/analysisFull/0d8605fc-6510-4b3d-91e9-11c7c771d2f3

@keiranmraine
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Mini BAM to test this against included as t/data/reconcile_bas.bam

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