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umccr / RNAsum

Pipeline for generating RNAseq-based cancer patient reports
https://umccr.github.io/RNAsum/
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manhattanly::manhattanr gene argument specified as Diff_Z_score but this column not found in 'x' data.frame #129

Closed pdiakumis closed 8 months ago

pdiakumis commented 10 months ago

Run in dev on SBJ04364 (wfr.85e80bcc8c7745888f62a2c21be3a1ad/trn.f1423bf3f85b4d8283f70c670443ee89) with PAAD reference:

Quitting from lines 2946-3078 [cn_genomic_view] (rnasum.Rmd)
Error in `dplyr::mutate()`:
ℹ In argument: `rnasum_rmd = RNAsum::rnasum_rmd(...)`.
ℹ In row 1.
Caused by error in `manhattanly::manhattanr()`:
! gene argument specified as Diff_Z_score but this column not found in 'x' data.frame
Backtrace:
 1. manhattanly::manhattanr(...)

Also reproduced locally. Might have something to do with the PAAD columns getting mixed.