[R] help with reshape

Wed Sep 9 07:59:48 CEST 2015

Hi David

But the final problem was that Ivan's code with original data (with NA) provided different result on his Mac  with R3.2.1 version and on my PC with R3.3.0 devel version.

Cheers
Petr

> -----Original Message-----
> From: R-help [mailto:r-help-bounces at r-project.org] On Behalf Of David L
> Carlson
> Sent: Tuesday, September 08, 2015 5:03 PM
> To: Ivan Calandra; R list
> Subject: Re: [R] help with reshape
>
> I don't think it is platform or version specific. The purpose of the
> missing value, NA (i.e. Not Available), is to flag the value for
> special handling in some way, often by deletion. You cannot assume that
> NA will be treated as any other value since that would defeat the whole
> purpose of flagging the value as missing. Similar results occur if you
> try to create tables or cross-tabulations of variables that include NAs
> with table() and xtabs().
>
> David
>
> -----Original Message-----
> From: R-help [mailto:r-help-bounces at r-project.org] On Behalf Of Ivan
> Calandra
> Sent: Tuesday, September 8, 2015 9:33 AM
> To: R list
> Subject: Re: [R] help with reshape
>
> David,
>
> It seems that your solution works, but why would that be? And why would
> this NA behavior be platform or version specific?
>
> I really need to check with a newer version of R...
>
> Ivan
>
> --
> Ivan Calandra, PhD
> University of Reims Champagne-Ardenne
> GEGENAA - EA 3795
> CREA - 2 esplanade Roland Garros
> 51100 Reims, France
> +33(0)3 26 77 36 89
> ivan.calandra at univ-reims.fr
> https://www.researchgate.net/profile/Ivan_Calandra
>
> Le 08/09/15 16:23, David L Carlson a écrit :
> > I have not followed this thread closely, but this seems to work:
> >
> > mydata$repet[is.na(mydata$repet)] <- 0 reshape(mydata,
> timevar="Elem",
> > idvar=c("Etape","Ech", "repet", "dilution","Rincage"),
> >       direction="wide", drop=c("ID","Nom_ech"))
> >
> > If this is the expected outcome, the problem is the NA values in
> repet. I changed them to 0 since you did not have any 0 entries in the
> data (otherwise you could use 999 or some other value that does not
> occur in the data). Change them back after running reshape().
> >
> > -------------------------------------
> > David L Carlson
> > Department of Anthropology
> > Texas A&M University
> > College Station, TX 77840-4352
> >
> >
> > ----Original Message-----
> > From: R-help [mailto:r-help-bounces at r-project.org] On Behalf Of Ivan
> > Calandra
> > Sent: Tuesday, September 8, 2015 7:56 AM
> > To: PIKAL Petr; R list
> > Subject: Re: [R] help with reshape
> >
> > Thanks Petr,
> > It looks good, but I have to check in more details.
> >
> > Can anyone help me with my original solution using reshape()? I'd
> like
> > to understand what I did wrong.
> > reshape(mydata, timevar="Elem",
> > idvar=c("Etape","Ech","repet","dilution","Rincage"),
> direction="wide",
> > drop=c("ID","Nom_ech"))
> >
> > Thank you in advance
> > Ivan
> >
> > --
> > Ivan Calandra, PhD
> > University of Reims Champagne-Ardenne
> > GEGENAA - EA 3795
> > CREA - 2 esplanade Roland Garros
> > 51100 Reims, France
> > +33(0)3 26 77 36 89
> > ivan.calandra at univ-reims.fr
> > https://www.researchgate.net/profile/Ivan_Calandra
> >
> > Le 08/09/15 14:45, PIKAL Petr a écrit :
> >> Hi
> >>
> >> I looked into docs to reshape2 and played around a bit and by some
> >> magical feature
> >>
> >> test <- dcast(mm, Etape+Ech+repet+dilution+Rincage~Elem)
> >>
> >> probably works as you expect.
> >>
> >> I cannot comment your solution as I use reshape only sparsely.
> >>
> >> Cheers
> >> Petr
> >>
> >>> -----Original Message-----
> >>> From: R-help [mailto:r-help-bounces at r-project.org] On Behalf Of
> Ivan
> >>> Calandra
> >>> Sent: Tuesday, September 08, 2015 2:18 PM
> >>> To: R list
> >>> Subject: Re: [R] help with reshape
> >>>
> >>> Thank you Petr,
> >>>
> >>> It kinda works, but not completely. The problem is that it produces
> >>> a column for each value ("Moyenne"), and not each element of
> "Elem".
> >>> That means I have only one value per column, instead of up to 3.
> >>> For example, I have 3 columns for Al1670 instead of just one, and
> >>> each column contains maximum one value (the others being NA).
> >>>
> >>> Not sure I am being clear...
> >>>
> >>> By the way, I don't understand why my solution did not work; what
> is
> >>> wrong there?
> >>>
> >>> Thank you again!
> >>> Ivan
> >>>
> >>> --
> >>> Ivan Calandra, PhD
> >>> University of Reims Champagne-Ardenne GEGENAA - EA 3795 CREA - 2
> >>> esplanade Roland Garros 51100 Reims, France
> >>> +33(0)3 26 77 36 89
> >>> ivan.calandra at univ-reims.fr
> >>> https://www.researchgate.net/profile/Ivan_Calandra
> >>>
> >>> Le 08/09/15 14:04, PIKAL Petr a écrit :
> >>>> Hi
> >>>>
> >>>> I am not sure if I got it
> >>>>
> >>>> library(reshape2)
> >>>> mm<-melt(mydata, measure.vars="Moyenne") test <- dcast(mm,
> >>>> Etape+Ech+repet+dilution+Rincage~Elem+value)
> >>>>
> >>>> gives me 3 rows but names need some tweaking afterwards.
> >>>>
> >>>> nn<-paste("Moyenne", unlist(lapply(strsplit(names(test)[-(1:5)],
> >>> "_"),
> >>>> "[", 1)), sep=".") names(test)[-(1:5)]<-nn
> >>>>
> >>>> Cheers
> >>>> Petr
> >>>>
> >>>>
> >>>>> -----Original Message-----
> >>>>> From: R-help [mailto:r-help-bounces at r-project.org] On Behalf Of
> >>>>> Ivan Calandra
> >>>>> Sent: Tuesday, September 08, 2015 12:33 PM
> >>>>> To: R list
> >>>>> Subject: [R] help with reshape
> >>>>>
> >>>>> Dear users,
> >>>>>
> >>>>> I'm having troubles with reshaping a data.frame from long to wide
> >>>>> format.
> >>>>> I copy the output of dput() at the end of the mail because it is
> >>>>> quite long.
> >>>>>
> >>>>> Each row of the column "Elem" should be transposed to a new
> column.
> >>>>> All variables "Etape", "Ech", "repet", "dilution", "Rincage"
> >>>>> define the samples. Meaning that for each unique combination of
> >>>>> these variables, I want a single row, and as many columns as
> >>>>> elements in
> >>> "Elem".
> >>>>> So I tried:
> >>>>> reshape(mydata, timevar="Elem",
> >>>>> idvar=c("Etape","Ech","repet","dilution","Rincage"),
> >>>>> direction="wide",
> >>>>> drop=c("ID","Nom_ech"))
> >>>>>
> >>>>> The problem is that some columns are not used at all for defining
> >>>>> samples. In this case, the row "S1, F10-3, NA, 1, oui" is
> missing,
> >>>>> but I don't understand why.
> >>>>>
> >>>>> Can you help me with that? I have no idea what I am doing
> wrong...
> >>>>>
> >>>>> Thanks in advance,
> >>>>> Ivan
> >>>>>
> >>>>>
> >>>>>
> >>>>> mydata <- structure(list(ID = c(543, 544, 545, 546, 547, 548,
> 549,
> >>>>> 550, 551, 552, 553, 554, 555, 556, 557, 558, 559, 560, 561, 562,
> >>>>> 11574, 11575, 11576, 11577, 11578, 11579, 11580, 11581, 11582,
> >>> 11583,
> >>>>> 683, 684, 685, 686, 687, 688, 689, 690, 691, 692, 693, 694, 695,
> >>> 696,
> >>>>> 697, 698, 699, 700, 701, 702), Nom_ech = c("Step1 B2", "Step1
> B2",
> >>>>> "Step1 B2", "Step1 B2", "Step1 B2", "Step1 B2", "Step1 B2",
> "Step1
> >>>>> B2",
> >>>>> "Step1 B2", "Step1 B2", "Step1 B2", "Step1 B2", "Step1 B2",
> "Step1
> >>>>> B2",
> >>>>> "Step1 B2", "Step1 B2", "Step1 B2", "Step1 B2", "Step1 B2",
> "Step1
> >>>>> B2",
> >>>>> "R1 S1 F1 0-3", "R1 S1 F1 0-3", "R1 S1 F1 0-3", "R1 S1 F1 0-3",
> >>>>> "R1 S1 F1 0-3", "R1 S1 F1 0-3", "R1 S1 F1 0-3", "R1 S1 F1 0-3",
> >>>>> "R1 S1 F1 0-3", "R1 S1 F1 0-3", "S1 F1 0-3 (1) *100", "S1 F1 0-3
> >>>>> (1) *100",
> >>>>> "S1 F1 0-3 (1) *100", "S1 F1 0-3 (1) *100", "S1 F1 0-3 (1) *100",
> >>>>> "S1 F1 0-3 (1) *100", "S1 F1 0-3 (1) *100", "S1 F1 0-3 (1) *100",
> >>>>> "S1 F1 0-3 (1) *100", "S1 F1 0-3 (1) *100", "S1 F1 0-3 (1) *100",
> >>>>> "S1 F1 0-3 (1) *100", "S1 F1 0-3 (1) *100", "S1 F1 0-3 (1) *100",
> >>>>> "S1 F1 0-3 (1) *100", "S1 F1 0-3 (1) *100", "S1 F1 0-3 (1) *100",
> >>>>> "S1 F1 0-3 (1) *100", "S1 F1 0-3 (1) *100", "S1 F1 0-3 (1) *100"
> >>>>> ), Etape = c("S1", "S1", "S1", "S1", "S1", "S1", "S1", "S1",
> "S1",
> >>>>> "S1", "S1", "S1", "S1", "S1", "S1", "S1", "S1", "S1", "S1", "S1",
> >>>>> "S1", "S1", "S1", "S1", "S1", "S1", "S1", "S1", "S1", "S1", "S1",
> >>>>> "S1", "S1", "S1", "S1", "S1", "S1", "S1", "S1", "S1", "S1", "S1",
> >>>>> "S1", "S1", "S1", "S1", "S1", "S1", "S1", "S1"), Ech = c("B2",
> >>>>> "B2", "B2", "B2", "B2", "B2", "B2", "B2", "B2", "B2", "B2", "B2",
> >>>>> "B2", "B2", "B2", "B2", "B2", "B2", "B2", "B2", "F10-3", "F10-3",
> >>>>> "F10-3", "F10-3", "F10-3", "F10-3", "F10-3", "F10-3", "F10-3",
> >>>>> "F10-3", "F10-3", "F10-3", "F10-3", "F10-3", "F10-3", "F10-3",
> >>>>> "F10-3", "F10-3", "F10-3", "F10-3", "F10-3", "F10-3", "F10-3",
> >>>>> "F10-3", "F10-
> >>> 3", "F10-3", "F10-3", "F10-3", "F10-3", "F10-3"
> >>>>> ), repet = c(NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA,
> >>>>> NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA, NA,
> >>>>> NA, 1,
> >>> 1,
> >>>>> 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1), dilution =
> >>>>> c(1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1,
> >>>>> 1, 1, 1, 1, 1, 1, 1, 1, 1, 100, 100, 100, 100, 100, 100, 100,
> 100,
> >>>>> 100, 100, 100, 100, 100, 100, 100, 100, 100, 100, 100, 100),
> >>>>> Rincage = c("non", "non", "non", "non", "non", "non", "non",
> >>>>> "non", "non", "non", "non", "non", "non", "non", "non", "non",
> >>>>> "non", "non",
> >>> "non",
> >>>>> "non", "oui", "oui", "oui", "oui", "oui", "oui", "oui", "oui",
> >>> "oui",
> >>>>> "oui", "non", "non", "non", "non", "non", "non", "non", "non",
> >>> "non",
> >>>>> "non", "non", "non", "non", "non", "non", "non", "non", "non",
> >>> "non",
> >>>>> "non"), Elem = c("Al1670", "As1890", "As1937", "Ca1840",
> "Ca3158",
> >>>>> "Cd2288", "Co2286", "Co2378", "Cr2055", "Cr2835", "Cu2247",
> >>> "Cu3247",
> >>>>> "Fe2382", "Fe2599", "K_7664", "Mg2795", "Mg2852", "Mn2576",
> >>> "Mn2605",
> >>>>> "Ni2216", "Al1670", "As1890", "As1937", "Ca1840", "Ca3158",
> >>> "Cd2288",
> >>>>> "Co2286", "Co2378", "Cr2055", "Cr2835", "Al1670", "As1890",
> >>> "As1937",
> >>>>> "Ca1840", "Ca3158", "Cd2288", "Co2286", "Co2378", "Cr2055",
> >>> "Cr2835",
> >>>>> "Cu2247", "Cu3247", "Fe2382", "Fe2599", "K_7664", "Mg2795",
> >>> "Mg2852",
> >>>>> "Mn2576", "Mn2605", "Ni2216"), Moyenne = c(NA, NA, 3.7455,
> >>>>> 596.166666666667, 578.2, 0.1514, NA, 1.87225, NA, 0.3664, 1.859,
> >>>>> 1.96766666666667, NA, NA, 9.29566666666667, 13.08, 12.69,
> 0.26875,
> >>>>> 0.2877, 0.2395, 5732.33333333333, 3.9615, 3.48833333333333,
> >>>>> 337.433333333333, 323.533333333333, 0.877166666666667,
> >>>>> 0.292466666666667, NA, 1.79566666666667, NA, 106.326666666667,
> NA,
> >>>>> 2.2755, 291.933333333333, 278.833333333333, 0.819, NA, 3.946, NA,
> >>> NA,
> >>>>> 1.47766666666667, 1.63266666666667, 40.44, 40.2533333333333,
> >>>>> 128.9, 50.11, 49.02, 37.4733333333333, 37.775, 0.3764)), .Names =
> >>>>> c("ID", "Nom_ech", "Etape", "Ech", "repet", "dilution",
> "Rincage",
> >>>>> "Elem", "Moyenne"), row.names = c(1L, 2L, 3L, 4L, 5L, 6L, 7L, 8L,
> >>>>> 9L, 10L, 11L, 12L, 13L, 14L, 15L, 16L, 17L, 18L, 19L, 20L, 29L,
> >>>>> 30L, 31L,
> >>> 32L,
> >>>>> 33L, 34L, 35L, 36L, 37L, 38L, 112L, 113L, 114L, 115L, 116L, 117L,
> >>>>> 118L, 119L, 120L, 121L, 122L, 123L, 124L, 125L, 126L, 127L, 128L,
> >>>>> 129L, 130L, 131L ), class = c("tbl_df", "tbl", "data.frame"))
> >>>>>
> >>>>> --
> >>>>>
> >>>>> Ivan Calandra, PhD
> >>>>> University of Reims Champagne-Ardenne GEGENAA - EA 3795 CREA - 2
> >>>>> esplanade Roland Garros 51100 Reims, France
> >>>>> +33(0)3 26 77 36 89
> >>>>> ivan.calandra at univ-reims.fr
> >>>>> https://www.researchgate.net/profile/Ivan_Calandra
> >>>>>
> >>>>> ______________________________________________
> >>>>> R-help at 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.
> >>>> ________________________________
> >> ________________________________
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> ______________________________________________
> R-help at 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-
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> and provide commented, minimal, self-contained, reproducible code.
> ______________________________________________
> R-help at 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-
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