Perfect as usual. Thanks, Samuel > object = lgcl > sapply(object at transforms, function(transMap) summary(new("transform", > .Data = transMap at f)) ,simplify = FALSE) $`FL3-H` $`FL3-H`$a [1] 0 $`FL3-H`$k transform object 'FL3-H_logicleTransform' $`FL3-H`$m [1] 4.5 $`FL3-H`$t [1] 10000 $`FL3-H`$transformationId [1] "FL3-H_logicleTransform" $`FL3-H`$w [1] 0 $`FL4-H` $`FL4-H`$a [1] 0 $`FL4-H`$k transform object 'FL4-H_logicleTransform' $`FL4-H`$m [1] 4.5 $`FL4-H`$t [1] 10000 $`FL4-H`$transformationId [1] "FL4-H_logicleTransform" $`FL4-H`$w [1] 0 On 26-02-2014 20:07, Mike wrote: > There isn't such function available for transformList. but you can > write something like this: > > setMethod("summary", > signature=signature(object="transformList"), > definition=function(object, ...) > { > sapply(object at transforms, function(transMap) > summary(new("transform", .Data = transMap at f)) > ,simplify = FALSE) > }) > > and then summary(lgcl) > > Mike > > On 02/26/2014 03:00 AM, bioconductor-request at r-project.org wrote: > >> Hi, >> >> I would to get the parameters a, w, m, t that the estimateLogicle >> computes. The question may be extended to how to get parameters from >> a transformList or a transformMap. What I would like, is a function >> that returns the same information as summary applied to a user >> defined transform. >> >> Cheers. >> >>>> data(GvHD) >>>> samp <- GvHD[[1]] >>>> lgcl <- estimateLogicle(samp, channels = c("FL3-H", "FL4-H")) >>>> lgcl <- logicleTransform(w = 0.74, t=2^18, m =4.5) >>>> summary(lgcl) >> >> $a >> [1] 0 >> >> $k >> transform object 'defaultLogicleTransform' >> >> $m >> [1] 4.5 >> >> $t >> [1] 262144 >> >> $transformationId >> [1] "defaultLogicleTransform" >> >> $w >> [1] 0.74