[R] help with reshape

Tue Sep 8 17:02:55 CEST 2015

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
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R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
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PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
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