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Question: DESeq2 'results' usability issue
0
gravatar for Gavin Kelly
11 weeks ago by
Gavin Kelly550
United Kingdom / London / Francis Crick Institute
Gavin Kelly550 wrote:

Debugging someone's code, I just noticed a slight usability issue with the results function, which has a '...' argument, so when results(dds, contrasts=c("group","A","B")) was called, the spelling mistake of the contrast argument wasn't picked up with a usual 'unused argument' warning, and it defaulted to something the user didn't want.  The documentation says that the optional arguments are passed to filterFun, but that no longer looks to be the case in that filterFun takes a specified set of named arguments.

Not a major thing in the grand scheme of things, but if the apparently unused '...' could be removed, it might lessen the chance of similar user error.

ADD COMMENTlink modified 11 weeks ago by Michael Love15k • written 11 weeks ago by Gavin Kelly550
2
gravatar for Michael Love
11 weeks ago by
Michael Love15k
United States
Michael Love15k wrote:

Thanks for the note, I’ll take a look and if possible make the change in devel.

ADD COMMENTlink written 11 weeks ago by Michael Love15k
1

Thanks Gavin, I made this change in devel.

ADD REPLYlink written 10 weeks ago by Michael Love15k
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