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Question: flowCore log transformation
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gravatar for Pieter Coussement
5.4 years ago by
Pieter Coussement30 wrote:
Hi, This is a quiet a specific question, but i really need help. I'm using the flowCore package coming from BioConductor. No i would like to do a transformation, a log tranformation. Although i think i put everything like it should, i get this error: Error in log(x, logbase) : Non-numeric argument to mathematical function which looks like a general calculating problem. the code i use now is the following: logTransi <- truncateTransform("truncate at 1", a=1) testSetLog <- transform(testSet, 'FL10'= logTransi('FL10'), 'FL11'=logTransi('FL11')) testSet looks like this: > testSet flowFrame object 'MarjanD.20120926.A.0026.fcs' with 100000 cells and 14 observables: name desc range minRange maxRange $P1 pulse.width <na> 65536 768 65535 $P2 FSC_PER <na> 65536 0 65535 $P3 FSC_PAR <na> 65536 0 65535 $P4 SSC <na> 65536 0 65535 $P5 FL01 <na> 65536 0 65535 $P6 FL02 <na> 65536 0 65535 $P7 FL03 <na> 65536 0 65535 $P8 FL04 <na> 65536 0 65535 $P9 FL05 <na> 65536 0 65535 $P10 FL10 <na> 65536 0 65535 $P11 FL11 <na> 65536 0 65535 $P12 FL12 <na> 65536 0 65535 $P13 FL13 <na> 65536 0 65535 $P14 TIME <na> 65536 47185 65535 78 keywords are stored in the 'description' slot Other transformation (truncateTransform) don't give an error, this one does... Any help? Kind regards, Pieter [[alternative HTML version deleted]]
ADD COMMENTlink modified 5.4 years ago by Jiang, Mike1.1k • written 5.4 years ago by Pieter Coussement30
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gravatar for Jiang, Mike
5.4 years ago by
Jiang, Mike1.1k
(Private Address)
Jiang, Mike1.1k wrote:
Pieter, Make sure that you use grave accent (`FL10` ) instead of apostrophe for the channel name. Thanks. Mike
ADD COMMENTlink written 5.4 years ago by Jiang, Mike1.1k
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gravatar for Jiang, Mike
5.4 years ago by
Jiang, Mike1.1k
(Private Address)
Jiang, Mike1.1k wrote:
You are welcome! On 01/30/2013 10:33 AM, Pieter Coussement wrote: > Thanks for the great tip. seems to be working now! > best regards, > Pieter > > On wo 30 jan 2013 19:21:11 CET, Mike wrote: >> Pieter, >> >> Make sure that you use grave accent (`FL10` ) instead of apostrophe >> for the channel name. >> >> Thanks. >> Mike >>
ADD COMMENTlink written 5.4 years ago by Jiang, Mike1.1k
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