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interpreting output from WES fishHook analysis #17

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Sumithrasank opened this issue Aug 12, 2021 · 0 comments
Open

interpreting output from WES fishHook analysis #17

Sumithrasank opened this issue Aug 12, 2021 · 0 comments

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@Sumithrasank
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Hi, I ran fishHook with WES data. Mutations were input as a granges object obtained from a maf file. Gene annotations were from the gencode v38 gtf file. For coverage, I lifted over the bigwig file for the hg19 version (given in the tutorial) to the hg38 version and used that. I could get the q-q plot but when I looked at the results, I found that there were multiple rows for a single gene. For example, for TP53 I found 221 rows (please see attached file). Could you please help me interpret this result? Thank you.
TP53.xlsx

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