Funcotator can select more than one transcript, even when CANONICAL or BEST_EFFECT is chosen. #4952
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LeeTL1220
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Jul 16, 2018
…nscript fix. (#4941) - MAF is the output of Funcotator in M2 WDL. Closes #4935 - Updated mutect2.wdl manually tested locally and manually tested in FireCloud. - Updated mutect2_nio.wdl manually tested in FireCloud. - Updated automatic Cromwell WDL tests. Closes #4807 - Empty MAFs will be devoid of variants, not a file of 0 bytes. Closes #4937 - Fixed issue where multiple transcripts could be selected in edge cases, even when CANONICAL or BEST_EFFECT was selected. Closes #4952
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Bug Report
Affected tool(s) or class(es)
Funcotator
Affected version(s)
Description
This happens when there are transcripts with different gene names that overlap a variant. Error is in
createFuncotationsOnVariant...Expected behavior
One transcript is selected.
Actual behavior
One transcript per overlapping gene name is selected.
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