I would have thought that this is straightforward given my previous email...
Just set z to what you want -- e,g, all B values to 29/number of B's, and all C values to 2.567/number of C's (etc. for more categories). A slick but sort of cheat way to do this programmatically -- in the sense that it relies on the implementation of factor() rather than its API -- is: y <- f1$v3 ## to simplify the notation; could be done using with() z <- (c(29,2.567)/table(y))[c(y)] Then proceed to z1 as I previously described -- Bert Bert Gunter Genentech Nonclinical Biostatistics (650) 467-7374 "Data is not information. Information is not knowledge. And knowledge is certainly not wisdom." Clifford Stoll On Sun, Mar 22, 2015 at 2:00 AM, Luca Meyer <lucam1...@gmail.com> wrote: > Hi Bert, hello R-experts, > > I am close to a solution but I still need one hint w.r.t. the following > procedure (available also from > https://www.dropbox.com/s/qhmpkkrejjkpbkx/sample_code.txt?dl=0) > > rm(list=ls()) > > # this is (an extract of) the INPUT file I have: > f1 <- structure(list(v1 = c("A", "A", "A", "A", "A", "A", "B", "B", "B", > "B", "B", "B"), v2 = c("A", "B", "C", "A", "B", "C", "A", "B", "C", "A", > "B", "C"), v3 = c("B", "B", "B", "C", "C", "C", "B", "B", "B", "C", "C", > "C"), v4 = c(18.18530, 3.43806,0.00273, 1.42917, 1.05786, 0.00042, 2.37232, > 3.01835, 0, 1.13430, 0.92872, 0)), .Names = c("v1", "v2", "v3", "v4"), class > = "data.frame", row.names = c(2L, 9L, 11L, 41L, 48L, 50L, 158L, 165L, 167L, > 197L, 204L, 206L)) > > # this is the procedure that Bert suggested (slightly adjusted): > z <- rnorm(nrow(f1)) ## or anything you want > z1 <- round(with(f1,v4 + z -ave(z,v1,v2,FUN=mean)), digits=5) > aggregate(v4~v1*v2,f1,sum) > aggregate(z1~v1*v2,f1,sum) > aggregate(v4~v3,f1,sum) > aggregate(z1~v3,f1,sum) > > My question to you is: how can I set z so that I can obtain specific values > for z1-v4 in the v3 aggregation? > In other words, how can I configure the procedure so that e.g. B=29 and > C=2.56723 after running the procedure: > aggregate(z1~v3,f1,sum) > > Thank you, > > Luca > > PS: to avoid any doubts you might have about who I am the following is my > web page: http://lucameyer.wordpress.com/ > > > 2015-03-21 18:13 GMT+01:00 Bert Gunter <gunter.ber...@gene.com>: >> >> ... or cleaner: >> >> z1 <- with(f1,v4 + z -ave(z,v1,v2,FUN=mean)) >> >> >> Just for curiosity, was this homework? (in which case I should >> probably have not provided you an answer -- that is, assuming that I >> HAVE provided an answer). >> >> Cheers, >> Bert >> >> Bert Gunter >> Genentech Nonclinical Biostatistics >> (650) 467-7374 >> >> "Data is not information. Information is not knowledge. And knowledge >> is certainly not wisdom." >> Clifford Stoll >> >> >> >> >> On Sat, Mar 21, 2015 at 7:53 AM, Bert Gunter <bgun...@gene.com> wrote: >> > z <- rnorm(nrow(f1)) ## or anything you want >> > z1 <- f1$v4 + z - with(f1,ave(z,v1,v2,FUN=mean)) >> > >> > >> > aggregate(v4~v1,f1,sum) >> > aggregate(z1~v1,f1,sum) >> > aggregate(v4~v2,f1,sum) >> > aggregate(z1~v2,f1,sum) >> > aggregate(v4~v3,f1,sum) >> > aggregate(z1~v3,f1,sum) >> > >> > >> > Cheers, >> > Bert >> > >> > Bert Gunter >> > Genentech Nonclinical Biostatistics >> > (650) 467-7374 >> > >> > "Data is not information. Information is not knowledge. And knowledge >> > is certainly not wisdom." >> > Clifford Stoll >> > >> > >> > >> > >> > On Sat, Mar 21, 2015 at 6:49 AM, Luca Meyer <lucam1...@gmail.com> wrote: >> >> Hi Bert, >> >> >> >> Thank you for your message. I am looking into ave() and tapply() as you >> >> suggested but at the same time I have prepared a example of input and >> >> output >> >> files, just in case you or someone else would like to make an attempt >> >> to >> >> generate a code that goes from input to output. >> >> >> >> Please see below or download it from >> >> https://www.dropbox.com/s/qhmpkkrejjkpbkx/sample_code.txt?dl=0 >> >> >> >> # this is (an extract of) the INPUT file I have: >> >> f1 <- structure(list(v1 = c("A", "A", "A", "A", "A", "A", "B", "B", >> >> "B", "B", "B", "B"), v2 = c("A", "B", "C", "A", "B", "C", "A", >> >> "B", "C", "A", "B", "C"), v3 = c("B", "B", "B", "C", "C", "C", >> >> "B", "B", "B", "C", "C", "C"), v4 = c(18.18530, 3.43806,0.00273, >> >> 1.42917, >> >> 1.05786, 0.00042, 2.37232, 3.01835, 0, 1.13430, 0.92872, >> >> 0)), .Names = c("v1", "v2", "v3", "v4"), class = "data.frame", >> >> row.names = >> >> c(2L, >> >> 9L, 11L, 41L, 48L, 50L, 158L, 165L, 167L, 197L, 204L, 206L)) >> >> >> >> # this is (an extract of) the OUTPUT file I would like to obtain: >> >> f2 <- structure(list(v1 = c("A", "A", "A", "A", "A", "A", "B", "B", >> >> "B", "B", "B", "B"), v2 = c("A", "B", "C", "A", "B", "C", "A", >> >> "B", "C", "A", "B", "C"), v3 = c("B", "B", "B", "C", "C", "C", >> >> "B", "B", "B", "C", "C", "C"), v4 = c(17.83529, 3.43806,0.00295, >> >> 1.77918, >> >> 1.05786, 0.0002, 2.37232, 3.01835, 0, 1.13430, 0.92872, >> >> 0)), .Names = c("v1", "v2", "v3", "v4"), class = "data.frame", >> >> row.names = >> >> c(2L, >> >> 9L, 11L, 41L, 48L, 50L, 158L, 165L, 167L, 197L, 204L, 206L)) >> >> >> >> # please notice that while the aggregated v4 on v3 has changed … >> >> aggregate(f1[,c("v4")],list(f1$v3),sum) >> >> aggregate(f2[,c("v4")],list(f2$v3),sum) >> >> >> >> # … the aggregated v4 over v1xv2 has remained unchanged: >> >> aggregate(f1[,c("v4")],list(f1$v1,f1$v2),sum) >> >> aggregate(f2[,c("v4")],list(f2$v1,f2$v2),sum) >> >> >> >> Thank you very much in advance for your assitance. >> >> >> >> Luca >> >> >> >> 2015-03-21 13:18 GMT+01:00 Bert Gunter <gunter.ber...@gene.com>: >> >>> >> >>> 1. Still not sure what you mean, but maybe look at ?ave and ?tapply, >> >>> for which ave() is a wrapper. >> >>> >> >>> 2. You still need to heed the rest of Jeff's advice. >> >>> >> >>> Cheers, >> >>> Bert >> >>> >> >>> Bert Gunter >> >>> Genentech Nonclinical Biostatistics >> >>> (650) 467-7374 >> >>> >> >>> "Data is not information. Information is not knowledge. And knowledge >> >>> is certainly not wisdom." >> >>> Clifford Stoll >> >>> >> >>> >> >>> >> >>> >> >>> On Sat, Mar 21, 2015 at 4:53 AM, Luca Meyer <lucam1...@gmail.com> >> >>> wrote: >> >>> > Hi Jeff & other R-experts, >> >>> > >> >>> > Thank you for your note. I have tried myself to solve the issue >> >>> > without >> >>> > success. >> >>> > >> >>> > Following your suggestion, I am providing a sample of the dataset I >> >>> > am >> >>> > using below (also downloadble in plain text from >> >>> > https://www.dropbox.com/s/qhmpkkrejjkpbkx/sample_code.txt?dl=0): >> >>> > >> >>> > #this is an extract of the overall dataset (n=1200 cases) >> >>> > f1 <- structure(list(v1 = c("A", "A", "A", "A", "A", "A", "B", "B", >> >>> > "B", "B", "B", "B"), v2 = c("A", "B", "C", "A", "B", "C", "A", >> >>> > "B", "C", "A", "B", "C"), v3 = c("B", "B", "B", "C", "C", "C", >> >>> > "B", "B", "B", "C", "C", "C"), v4 = c(18.1853007621835, >> >>> > 3.43806581506388, >> >>> > 0.002733567617055, 1.42917483425029, 1.05786640463504, >> >>> > 0.000420548864162308, >> >>> > 2.37232740842861, 3.01835841813241, 0, 1.13430282139936, >> >>> > 0.928725667117666, >> >>> > 0)), .Names = c("v1", "v2", "v3", "v4"), class = "data.frame", >> >>> > row.names >> >>> > = >> >>> > c(2L, >> >>> > 9L, 11L, 41L, 48L, 50L, 158L, 165L, 167L, 197L, 204L, 206L)) >> >>> > >> >>> > I need to find a automated procedure that allows me to adjust v3 >> >>> > marginals >> >>> > while maintaining v1xv2 marginals unchanged. >> >>> > >> >>> > That is: modify the v4 values you can find by running: >> >>> > >> >>> > aggregate(f1[,c("v4")],list(f1$v3),sum) >> >>> > >> >>> > while maintaining costant the values you can find by running: >> >>> > >> >>> > aggregate(f1[,c("v4")],list(f1$v1,f1$v2),sum) >> >>> > >> >>> > Now does it make sense? >> >>> > >> >>> > Please notice I have tried to build some syntax that tries to modify >> >>> > values >> >>> > within each v1xv2 combination by computing sum of v4, row percentage >> >>> > in >> >>> > terms of v4, and there is where my effort is blocked. Not really >> >>> > sure >> >>> > how I >> >>> > should proceed. Any suggestion? >> >>> > >> >>> > Thanks, >> >>> > >> >>> > Luca >> >>> > >> >>> > >> >>> > 2015-03-19 2:38 GMT+01:00 Jeff Newmiller <jdnew...@dcn.davis.ca.us>: >> >>> > >> >>> >> I don't understand your description. The standard practice on this >> >>> >> list >> >>> >> is >> >>> >> to provide a reproducible R example [1] of the kind of data you are >> >>> >> working >> >>> >> with (and any code you have tried) to go along with your >> >>> >> description. >> >>> >> In >> >>> >> this case, that would be two dputs of your input data frames and a >> >>> >> dput >> >>> >> of >> >>> >> an output data frame (generated by hand from your input data >> >>> >> frame). >> >>> >> (Probably best to not use the full number of input values just to >> >>> >> keep >> >>> >> the >> >>> >> size down.) We could then make an attempt to generate code that >> >>> >> goes >> >>> >> from >> >>> >> input to output. >> >>> >> >> >>> >> Of course, if you post that hard work using HTML then it will get >> >>> >> corrupted (much like the text below from your earlier emails) and >> >>> >> we >> >>> >> won't >> >>> >> be able to use it. Please learn to post from your email software >> >>> >> using >> >>> >> plain text when corresponding with this mailing list. >> >>> >> >> >>> >> [1] >> >>> >> >> >>> >> >> >>> >> http://stackoverflow.com/questions/5963269/how-to-make-a-great-r-reproducible-example >> >>> >> >> >>> >> >> >>> >> --------------------------------------------------------------------------- >> >>> >> Jeff Newmiller The ..... ..... Go >> >>> >> Live... >> >>> >> DCN:<jdnew...@dcn.davis.ca.us> Basics: ##.#. ##.#. >> >>> >> Live >> >>> >> Go... >> >>> >> Live: OO#.. Dead: OO#.. >> >>> >> Playing >> >>> >> Research Engineer (Solar/Batteries O.O#. #.O#. >> >>> >> with >> >>> >> /Software/Embedded Controllers) .OO#. .OO#. >> >>> >> rocks...1k >> >>> >> >> >>> >> >> >>> >> --------------------------------------------------------------------------- >> >>> >> Sent from my phone. Please excuse my brevity. >> >>> >> >> >>> >> On March 18, 2015 9:05:37 AM PDT, Luca Meyer <lucam1...@gmail.com> >> >>> >> wrote: >> >>> >> >Thanks for you input Michael, >> >>> >> > >> >>> >> >The continuous variable I have measures quantities (down to the >> >>> >> > 3rd >> >>> >> >decimal level) so unfortunately are not frequencies. >> >>> >> > >> >>> >> >Any more specific suggestions on how that could be tackled? >> >>> >> > >> >>> >> >Thanks & kind regards, >> >>> >> > >> >>> >> >Luca >> >>> >> > >> >>> >> > >> >>> >> >=== >> >>> >> > >> >>> >> >Michael Friendly wrote: >> >>> >> >I'm not sure I understand completely what you want to do, but >> >>> >> >if the data were frequencies, it sounds like task for fitting a >> >>> >> >loglinear model with the model formula >> >>> >> > >> >>> >> >~ V1*V2 + V3 >> >>> >> > >> >>> >> >On 3/18/2015 2:17 AM, Luca Meyer wrote: >> >>> >> >>* Hello, >> >>> >> >*>>* I am facing a quite challenging task (at least to me) and I >> >>> >> > was >> >>> >> >wondering >> >>> >> >*>* if someone could advise how R could assist me to speed the >> >>> >> > task >> >>> >> > up. >> >>> >> >*>>* I am dealing with a dataset with 3 discrete variables and one >> >>> >> >continuous >> >>> >> >*>* variable. The discrete variables are: >> >>> >> >*>>* V1: 8 modalities >> >>> >> >*>* V2: 13 modalities >> >>> >> >*>* V3: 13 modalities >> >>> >> >*>>* The continuous variable V4 is a decimal number always greater >> >>> >> > than >> >>> >> >zero in >> >>> >> >*>* the marginals of each of the 3 variables but it is sometimes >> >>> >> > equal >> >>> >> >to zero >> >>> >> >*>* (and sometimes negative) in the joint tables. >> >>> >> >*>>* I have got 2 files: >> >>> >> >*>>* => one with distribution of all possible combinations of >> >>> >> > V1xV2 >> >>> >> >(some of >> >>> >> >*>* which are zero or neagtive) and >> >>> >> >*>* => one with the marginal distribution of V3. >> >>> >> >*>>* I am trying to build the long and narrow dataset V1xV2xV3 in >> >>> >> > such >> >>> >> >a way >> >>> >> >*>* that each V1xV2 cell does not get modified and V3 fits as >> >>> >> > closely >> >>> >> >as >> >>> >> >*>* possible to its marginal distribution. Does it make sense? >> >>> >> >*>>* To be even more specific, my 2 input files look like the >> >>> >> >following. >> >>> >> >*>>* FILE 1 >> >>> >> >*>* V1,V2,V4 >> >>> >> >*>* A, A, 24.251 >> >>> >> >*>* A, B, 1.065 >> >>> >> >*>* (...) >> >>> >> >*>* B, C, 0.294 >> >>> >> >*>* B, D, 2.731 >> >>> >> >*>* (...) >> >>> >> >*>* H, L, 0.345 >> >>> >> >*>* H, M, 0.000 >> >>> >> >*>>* FILE 2 >> >>> >> >*>* V3, V4 >> >>> >> >*>* A, 1.575 >> >>> >> >*>* B, 4.294 >> >>> >> >*>* C, 10.044 >> >>> >> >*>* (...) >> >>> >> >*>* L, 5.123 >> >>> >> >*>* M, 3.334 >> >>> >> >*>>* What I need to achieve is a file such as the following >> >>> >> >*>>* FILE 3 >> >>> >> >*>* V1, V2, V3, V4 >> >>> >> >*>* A, A, A, ??? >> >>> >> >*>* A, A, B, ??? >> >>> >> >*>* (...) >> >>> >> >*>* D, D, E, ??? >> >>> >> >*>* D, D, F, ??? >> >>> >> >*>* (...) >> >>> >> >*>* H, M, L, ??? >> >>> >> >*>* H, M, M, ??? >> >>> >> >*>>* Please notice that FILE 3 need to be such that if I aggregate >> >>> >> > on >> >>> >> >V1+V2 I >> >>> >> >*>* recover exactly FILE 1 and that if I aggregate on V3 I can >> >>> >> > recover >> >>> >> >a file >> >>> >> >*>* as close as possible to FILE 3 (ideally the same file). >> >>> >> >*>>* Can anyone suggest how I could do that with R? >> >>> >> >*>>* Thank you very much indeed for any assistance you are able to >> >>> >> >provide. >> >>> >> >*>>* Kind regards, >> >>> >> >*>>* Luca* >> >>> >> > >> >>> >> > [[alternative HTML version deleted]] >> >>> >> > >> >>> >> >______________________________________________ >> >>> >> >R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see >> >>> >> >https://stat.ethz.ch/mailman/listinfo/r-help >> >>> >> >PLEASE do read the posting guide >> >>> >> >http://www.R-project.org/posting-guide.html >> >>> >> >and provide commented, minimal, self-contained, reproducible code. >> >>> >> >> >>> >> >> >>> > >> >>> > [[alternative HTML version deleted]] >> >>> > >> >>> > ______________________________________________ >> >>> > R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see >> >>> > https://stat.ethz.ch/mailman/listinfo/r-help >> >>> > PLEASE do read the posting guide >> >>> > http://www.R-project.org/posting-guide.html >> >>> > and provide commented, minimal, self-contained, reproducible code. >> >> >> >> > > ______________________________________________ R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
