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tgen / phoenix

Jetstream compatible workflow template supporting comprehensive analysis of human sequencing data against GRCh38
MIT License
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mutation_burden format for stats2json and stats2lims #426

Open bryce-turner opened 3 years ago

bryce-turner commented 3 years ago

For mutation burden we can only get sample level mutation burden, but we report it at the library level for consistency with other metrics tools. As a result we currently are using the first library in the list when jetstream parses the datafiles. We should duplicate the mutation burden for each library:

For example:

## METRICS CLASS
MutationsCount  Coverage        MutationBurdenPerMillionBase    SAMPLE  LIBRARY READ_GROUP
68     34046067        1.99729        EXAMPLE_1_BM_T1      K12345
68     34046067        1.99729        EXAMPLE_1_BM_T1      K12346