[R] help with reshape

Wed Sep 9 10:02:29 CEST 2015

Hi David and Petr,

Just a small update: I have installed R3.2.2 for Snow Leopard (from 
http://r.research.att.com/) and I still get the same problem. There is 
no available version of 3.3.0 for Snow Leopard so I will have to wait to 
check that.

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 09/09/15 07:59, PIKAL Petr a écrit :
> 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
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>>> PLEASE do read the posting guide
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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-
>> guide.html
>> 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-
>> guide.html
>> and provide commented, minimal, self-contained, reproducible code.
> ________________________________
> Tento e-mail a jakékoliv k němu připojené dokumenty jsou důvěrné a jsou určeny pouze jeho adresátům.
> Jestliže jste obdržel(a) tento e-mail omylem, informujte laskavě neprodleně jeho odesílatele. Obsah tohoto emailu i s přílohami a jeho kopie vymažte ze svého systému.
> Nejste-li zamýšleným adresátem tohoto emailu, nejste oprávněni tento email jakkoliv užívat, rozšiřovat, kopírovat či zveřejňovat.
> Odesílatel e-mailu neodpovídá za eventuální škodu způsobenou modifikacemi či zpožděním přenosu e-mailu.
>
> V případě, že je tento e-mail součástí obchodního jednání:
> - vyhrazuje si odesílatel právo ukončit kdykoliv jednání o uzavření smlouvy, a to z jakéhokoliv důvodu i bez uvedení důvodu.
> - a obsahuje-li nabídku, je adresát oprávněn nabídku bezodkladně přijmout; Odesílatel tohoto e-mailu (nabídky) vylučuje přijetí nabídky ze strany příjemce s dodatkem či odchylkou.
> - trvá odesílatel na tom, že příslušná smlouva je uzavřena teprve výslovným dosažením shody na všech jejích náležitostech.
> - odesílatel tohoto emailu informuje, že není oprávněn uzavírat za společnost žádné smlouvy s výjimkou případů, kdy k tomu byl písemně zmocněn nebo písemně pověřen a takové pověření nebo plná moc byly adresátovi tohoto emailu případně osobě, kterou adresát zastupuje, předloženy nebo jejich existence je adresátovi či osobě jím zastoupené známá.
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> The sender of this e-mail shall not be liable for any possible damage caused by modifications of the e-mail or by delay with transfer of the email.
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> In case that this e-mail forms part of business dealings:
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> - if the e-mail contains an offer, the recipient is entitled to immediately accept such offer; The sender of this e-mail (offer) excludes any acceptance of the offer on the part of the recipient containing any amendment or variation.
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