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Andrea Goijman

2013-Jan-04 23:15 UTC

[R] help "reshaping" dataframe

List,

I want to reshape my data, but I'm not sure how to do it... it might be a
simple task, but don't know which package does this.
"occ.data" (see below) is how my original data are arranged, and I
know
that with melt() I can reshape it like "y" (see below). However, I
just
want to build a matrix like the "y" matrix, but with only 2
dimensions.
Something like this:

    year    Site      specie  Pres  Rep1  Rep2  Rep3  Rep4  Rep5
1  2003   2021    MICH     1          0        0           1        1
 0
3  2003   2021    MISA     1          1        0            0        0
  0
4  2003   2021    MOBO    1         1        1            0        0
0

where "year" and "specie" are not another dimension, they
are different
columns; and Rep is the other dimension


> occ.data <- read.table("Occ_03.csv",
header=TRUE,sep=",",na.strings=TRUE)
> occ.data[1:20,]    year Ruta Point Site specie Pres Rep
1  2003      202     3 2021    MICH    1   3
2  2003      202     4 2021    MICH    1   4
3  2003      202     1 2021    MISA    1   1
4  2003      202     1 2021    MOBO    1   1
5  2003      202     2 2021    MOBO    1   2
6  2003      202     3 2021    MOBO    1   3
7  2003      202     4 2021    MOBO    1   4
8  2003      202     1 2021    SILU    1   1
9  2003      202     4 2021    SILU    1   4
10 2003      202     5 2021    TYSA    1   5
11 2003      202     1 2021    ZEAU    1   1
12 2003      202     3 2021    ZEAU    1   3
13 2003      202     4 2021    ZEAU    1   4
14 2003      202     5 2021    ZEAU    1   5
15 2003      202     1 2021    ZOCA    1   1
16 2003      202     4 2021    ZOCA    1   4
17 2003      202     5 2021    ZOCA    1   5
18 2003      202    10 2022    MICH    1   5
19 2003      202     7 2022    MISA    1   2
20 2003      202     8 2022    MISA    1   3>
> ###Reshape the data using the R package "reshape"
> library(reshape)
>
> all.melt=melt(occ.data,id.var=c("specie", "Site",
"Rep", "year"),
measure.var="Pres")> y=cast(all.melt, Site ~ Rep ~ specie ~ year)
>
> y[is.na(y)] <- 0
>
> y[1:10,,1,], , year = 2003

      Rep
Site   1 2 3 4 5
  1021 0 0 0 0 0
  1022 0 0 0 0 0
  1023 0 0 0 0 0
  1024 0 0 0 0 0
  1025 0 0 0 0 0
  1026 0 0 0 0 0
  2021 0 0 0 0 0
  2022 0 0 0 0 0
  2023 0 0 0 0 0
  2024 0 0 0 0 0

, , year = 2004

      Rep
Site   1 2 3 4 5
  1021 0 0 0 0 1
  1022 1 0 0 0 0
  1023 0 0 0 0 0
  1024 0 0 0 0 0
  1025 0 0 0 0 0
  1026 0 0 0 0 0
  2021 0 0 0 0 0
  2022 0 0 0 0 0
  2023 0 0 0 0 0
  2024 0 0 0 0 0

	[[alternative HTML version deleted]]

arun

2013-Jan-05 03:21 UTC

head link

[R] help "reshaping" dataframe

HI,

May be this helps:

?occ.data1<-occ.data[,-c(2:3)]
res<-reshape(occ.data1,direction="wide",idvar=c("specie","Site","Pres","year"),timevar="Rep",v.names="Rep")
res<-res[,c(1:4,7:8,5:6,9)]
res[grep("Rep",names(res))]<-apply(res[grep("Rep",names(res))],2,
function(x)
ifelse(is.na(x),0,1))?names(res)[grep("Rep",names(res))]<-gsub("[.]","",names(res)[grep("Rep",names(res))])
?row.names(res)<-1:nrow(res)
?res
#? year Site specie Pres Rep1 Rep2 Rep3 Rep4 Rep5
#1 2003 2021?? MICH??? 1??? 0??? 0??? 1??? 1??? 0
#2 2003 2021?? MISA??? 1??? 1??? 0??? 0??? 0??? 0
#3 2003 2021?? MOBO??? 1??? 1??? 1??? 1??? 1??? 0
#4 2003 2021?? SILU??? 1??? 1??? 0??? 0??? 1??? 0
#5 2003 2021?? TYSA??? 1??? 0??? 0??? 0??? 0??? 1
#6 2003 2021?? ZEAU??? 1??? 1??? 0??? 1??? 1??? 1
#7 2003 2021?? ZOCA??? 1??? 1??? 0??? 0??? 1??? 1
#8 2003 2022?? MICH??? 1??? 0??? 0??? 0??? 0??? 1
#9 2003 2022?? MISA??? 1??? 0??? 1??? 1??? 0??? 0
A.K.



----- Original Message -----
From: Andrea Goijman <agoijman at cnia.inta.gov.ar>
To: R help <r-help at r-project.org>
Cc: 
Sent: Friday, January 4, 2013 6:15 PM
Subject: [R] help "reshaping" dataframe

List,

I want to reshape my data, but I'm not sure how to do it... it might be a
simple task, but don't know which package does this.
"occ.data" (see below) is how my original data are arranged, and I
know
that with melt() I can reshape it like "y" (see below). However, I
just
want to build a matrix like the "y" matrix, but with only 2
dimensions.
Something like this:

? ? year? ? Site? ? ? specie? Pres? Rep1? Rep2? Rep3? Rep4? Rep5
1? 2003?  2021? ? MICH? ?  1? ? ? ? ? 0? ? ? ? 0? ? ? ? ?  1? ? ? ? 1
0
3? 2003?  2021? ? MISA? ?  1? ? ? ? ? 1? ? ? ? 0? ? ? ? ? ? 0? ? ? ? 0
? 0
4? 2003?  2021? ? MOBO? ? 1? ? ? ?  1? ? ? ? 1? ? ? ? ? ? 0? ? ? ? 0
0

where "year" and "specie" are not another dimension, they
are different
columns; and Rep is the other dimension


> occ.data <- read.table("Occ_03.csv",
header=TRUE,sep=",",na.strings=TRUE)
> occ.data[1:20,]? ? year Ruta Point Site specie Pres Rep
1? 2003? ? ? 202? ?  3 2021? ? MICH? ? 1?  3
2? 2003? ? ? 202? ?  4 2021? ? MICH? ? 1?  4
3? 2003? ? ? 202? ?  1 2021? ? MISA? ? 1?  1
4? 2003? ? ? 202? ?  1 2021? ? MOBO? ? 1?  1
5? 2003? ? ? 202? ?  2 2021? ? MOBO? ? 1?  2
6? 2003? ? ? 202? ?  3 2021? ? MOBO? ? 1?  3
7? 2003? ? ? 202? ?  4 2021? ? MOBO? ? 1?  4
8? 2003? ? ? 202? ?  1 2021? ? SILU? ? 1?  1
9? 2003? ? ? 202? ?  4 2021? ? SILU? ? 1?  4
10 2003? ? ? 202? ?  5 2021? ? TYSA? ? 1?  5
11 2003? ? ? 202? ?  1 2021? ? ZEAU? ? 1?  1
12 2003? ? ? 202? ?  3 2021? ? ZEAU? ? 1?  3
13 2003? ? ? 202? ?  4 2021? ? ZEAU? ? 1?  4
14 2003? ? ? 202? ?  5 2021? ? ZEAU? ? 1?  5
15 2003? ? ? 202? ?  1 2021? ? ZOCA? ? 1?  1
16 2003? ? ? 202? ?  4 2021? ? ZOCA? ? 1?  4
17 2003? ? ? 202? ?  5 2021? ? ZOCA? ? 1?  5
18 2003? ? ? 202? ? 10 2022? ? MICH? ? 1?  5
19 2003? ? ? 202? ?  7 2022? ? MISA? ? 1?  2
20 2003? ? ? 202? ?  8 2022? ? MISA? ? 1?  3>
> ###Reshape the data using the R package "reshape"
> library(reshape)
>
> all.melt=melt(occ.data,id.var=c("specie", "Site",
"Rep", "year"),
measure.var="Pres")> y=cast(all.melt, Site ~ Rep ~ specie ~ year)
>
> y[is.na(y)] <- 0
>
> y[1:10,,1,], , year = 2003

? ? ? Rep
Site?  1 2 3 4 5
? 1021 0 0 0 0 0
? 1022 0 0 0 0 0
? 1023 0 0 0 0 0
? 1024 0 0 0 0 0
? 1025 0 0 0 0 0
? 1026 0 0 0 0 0
? 2021 0 0 0 0 0
? 2022 0 0 0 0 0
? 2023 0 0 0 0 0
? 2024 0 0 0 0 0

, , year = 2004

? ? ? Rep
Site?  1 2 3 4 5
? 1021 0 0 0 0 1
? 1022 1 0 0 0 0
? 1023 0 0 0 0 0
? 1024 0 0 0 0 0
? 1025 0 0 0 0 0
? 1026 0 0 0 0 0
? 2021 0 0 0 0 0
? 2022 0 0 0 0 0
? 2023 0 0 0 0 0
? 2024 0 0 0 0 0

??? [[alternative HTML version deleted]]

______________________________________________
R-help at r-project.org mailing list
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.

arun

2013-Jan-05 03:44 UTC

head link

[R] help "reshaping" dataframe

Hi,
You could also use ?dcast()
occ.data1<-occ.data[,-c(2:3)]
library(reshape2)
res1<-dcast(occ.data1,year+Site+specie+Pres~Rep,value.var="Rep")
names(res1)[grep("[0-9]",names(res1))]<-paste("Rep",1:5,sep="")

res1[,-c(1:4)]<-sapply(res1[,-c(1:4)],function(x) as.integer(is.na(x)))

res1
#? year Site specie Pres Rep1 Rep2 Rep3 Rep4 Rep5
#1 2003 2021?? MICH??? 1??? 1??? 1??? 0??? 0??? 1
#2 2003 2021?? MISA??? 1??? 0??? 1??? 1??? 1??? 1
#3 2003 2021?? MOBO??? 1??? 0??? 0??? 0??? 0??? 1
#4 2003 2021?? SILU??? 1??? 0??? 1??? 1??? 0??? 1
#5 2003 2021?? TYSA??? 1??? 1??? 1??? 1??? 1??? 0
#6 2003 2021?? ZEAU??? 1??? 0??? 1??? 0??? 0??? 0
#7 2003 2021?? ZOCA??? 1??? 0??? 1??? 1??? 0??? 0
#8 2003 2022?? MICH??? 1??? 1??? 1??? 1??? 1??? 0
#9 2003 2022?? MISA??? 1??? 1??? 0??? 0??? 1??? 1

A.K. 





----- Original Message -----
From: Andrea Goijman <agoijman at cnia.inta.gov.ar>
To: R help <r-help at r-project.org>
Cc: 
Sent: Friday, January 4, 2013 6:15 PM
Subject: [R] help "reshaping" dataframe

List,

I want to reshape my data, but I'm not sure how to do it... it might be a
simple task, but don't know which package does this.
"occ.data" (see below) is how my original data are arranged, and I
know
that with melt() I can reshape it like "y" (see below). However, I
just
want to build a matrix like the "y" matrix, but with only 2
dimensions.
Something like this:

? ? year? ? Site? ? ? specie? Pres? Rep1? Rep2? Rep3? Rep4? Rep5
1? 2003?  2021? ? MICH? ?  1? ? ? ? ? 0? ? ? ? 0? ? ? ? ?  1? ? ? ? 1
0
3? 2003?  2021? ? MISA? ?  1? ? ? ? ? 1? ? ? ? 0? ? ? ? ? ? 0? ? ? ? 0
? 0
4? 2003?  2021? ? MOBO? ? 1? ? ? ?  1? ? ? ? 1? ? ? ? ? ? 0? ? ? ? 0
0

where "year" and "specie" are not another dimension, they
are different
columns; and Rep is the other dimension


> occ.data <- read.table("Occ_03.csv",
header=TRUE,sep=",",na.strings=TRUE)
> occ.data[1:20,]? ? year Ruta Point Site specie Pres Rep
1? 2003? ? ? 202? ?  3 2021? ? MICH? ? 1?  3
2? 2003? ? ? 202? ?  4 2021? ? MICH? ? 1?  4
3? 2003? ? ? 202? ?  1 2021? ? MISA? ? 1?  1
4? 2003? ? ? 202? ?  1 2021? ? MOBO? ? 1?  1
5? 2003? ? ? 202? ?  2 2021? ? MOBO? ? 1?  2
6? 2003? ? ? 202? ?  3 2021? ? MOBO? ? 1?  3
7? 2003? ? ? 202? ?  4 2021? ? MOBO? ? 1?  4
8? 2003? ? ? 202? ?  1 2021? ? SILU? ? 1?  1
9? 2003? ? ? 202? ?  4 2021? ? SILU? ? 1?  4
10 2003? ? ? 202? ?  5 2021? ? TYSA? ? 1?  5
11 2003? ? ? 202? ?  1 2021? ? ZEAU? ? 1?  1
12 2003? ? ? 202? ?  3 2021? ? ZEAU? ? 1?  3
13 2003? ? ? 202? ?  4 2021? ? ZEAU? ? 1?  4
14 2003? ? ? 202? ?  5 2021? ? ZEAU? ? 1?  5
15 2003? ? ? 202? ?  1 2021? ? ZOCA? ? 1?  1
16 2003? ? ? 202? ?  4 2021? ? ZOCA? ? 1?  4
17 2003? ? ? 202? ?  5 2021? ? ZOCA? ? 1?  5
18 2003? ? ? 202? ? 10 2022? ? MICH? ? 1?  5
19 2003? ? ? 202? ?  7 2022? ? MISA? ? 1?  2
20 2003? ? ? 202? ?  8 2022? ? MISA? ? 1?  3>
> ###Reshape the data using the R package "reshape"
> library(reshape)
>
> all.melt=melt(occ.data,id.var=c("specie", "Site",
"Rep", "year"),
measure.var="Pres")> y=cast(all.melt, Site ~ Rep ~ specie ~ year)
>
> y[is.na(y)] <- 0
>
> y[1:10,,1,], , year = 2003

? ? ? Rep
Site?  1 2 3 4 5
? 1021 0 0 0 0 0
? 1022 0 0 0 0 0
? 1023 0 0 0 0 0
? 1024 0 0 0 0 0
? 1025 0 0 0 0 0
? 1026 0 0 0 0 0
? 2021 0 0 0 0 0
? 2022 0 0 0 0 0
? 2023 0 0 0 0 0
? 2024 0 0 0 0 0

, , year = 2004

? ? ? Rep
Site?  1 2 3 4 5
? 1021 0 0 0 0 1
? 1022 1 0 0 0 0
? 1023 0 0 0 0 0
? 1024 0 0 0 0 0
? 1025 0 0 0 0 0
? 1026 0 0 0 0 0
? 2021 0 0 0 0 0
? 2022 0 0 0 0 0
? 2023 0 0 0 0 0
? 2024 0 0 0 0 0

??? [[alternative HTML version deleted]]

______________________________________________
R-help at r-project.org mailing list
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.

Jim Lemon

2013-Jan-05 05:26 UTC

head link

[R] help "reshaping" dataframe

On 01/05/2013 10:15 AM, Andrea Goijman wrote:
...
Hi Andrea,
This may be what you want:

occ.data<-data.frame(year=rep(2003,20),Ruta=rep(202,20),
+  Point=c(3,4,1,1,2,3,4,1,4,5,1,3,4,5,1,4,5,10,7,8),
+  Site=c(rep(2021,17),rep(2022,3)),
+ 
specie=c("MICH","MICH","MISA","MOBO","MOBO","MOBO","MOBO",
+ 
"SILU","SILU","TYSA","ZEAU","ZEAU","ZEAU","ZEAU","ZOCA","ZOCA",
+ 
"ZOCA","MICH","MISA","MISA"),Pres=rep(1,20),
+  Rep=c(3,4,1,1,2,3,4,1,4,5,1,3,4,5,1,4,5,5,2,3))
 > library(prettyR)
 > stretch_df(occ.data,idvar="specie",to.stretch="Rep",
 >  ordervar="Pres",include.ordervar=FALSE)
   specie year Ruta Point Site Rep_1 Rep_2 Rep_3 Rep_4
1   MICH 2003  202     3 2021     3     4     5    NA
2   MISA 2003  202     1 2021     1     2     3    NA
3   MOBO 2003  202     1 2021     1     2     3     4
4   SILU 2003  202     1 2021     1     4    NA    NA
5   TYSA 2003  202     5 2021     5    NA    NA    NA
6   ZEAU 2003  202     1 2021     1     3     4     5
7   ZOCA 2003  202     1 2021     1     4     5    NA

Jim

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