Extract or replace parts of an FLR Object
Usage
# S4 method for FLArray,ANY,ANY,ANY
[(x, i, j, k, l, m, n, ..., drop = FALSE)
# S4 method for FLArray,array,missing,missing
[(x, i)
# S4 method for FLArray,ANY,ANY,ANY
[(x, i, j, k, l, m, n, ...) <- value
# S4 method for FLArray,ANY,ANY,FLArray
[(x, i, j, k, l, m, n, ...) <- value
# S4 method for FLQuant
$(x, name)
# S4 method for FLQuantDistr,ANY,ANY,ANY
[(x, i, j, k, l, m, n)
# S4 method for FLQuantDistr,array,missing,missing
[(x, i)
# S4 method for FLPar,ANY,ANY,ANY
[(x, i, j, k, l, m, n, ..., drop = FALSE)
# S4 method for FLPar,array,missing,missing
[(x, i)
# S4 method for FLPar,ANY,ANY,ANY
[(x, i, j, k, l, m, n, ...) <- value
# S4 method for FLPar
$(x, name)
# S4 method for FLPar
$(x, name) <- value
# S4 method for FLComp,ANY,ANY,ANY
[(x, i, j, k, l, m, n, ..., drop = FALSE)
# S4 method for FLComp,ANY,ANY,ANY
[(x, i, j, k, l, m, n, ...) <- value
# S4 method for FLStock,ANY,ANY,ANY
[(x, i, j, k, l, m, n, ..., drop = FALSE)
# S4 method for FLStock,ANY,ANY,FLStock
[(x, i, j, k, l, m, n, ...) <- value
# S4 method for FLI,ANY,ANY,ANY
[(x, i, j, k, l, m, n, ..., drop = FALSE)
# S4 method for predictModel,ANY,missing,ANY
[(x, i, k, l, m, n, ..., drop = FALSE)
# S4 method for FLlst,ANY,missing
[[(x, i, j) <- value
# S4 method for FLlst
$(x, name) <- value
# S4 method for FLlst,ANY,missing,ANY
[(x, i, j) <- value
# S4 method for FLlst,ANY,missing,ANY
[(x, i, drop)Arguments
- x
object from which to extract or replace element(s)
- i, j, k, l, m, n
indices specifying elements to extract or replace on any of the six dimensions.
- ...
indices specifying elements to extract or replace by dimension name.
- drop
If 'TRUE' the result is coerced to the lowest possible dimension, and so might change class (e.g. drop='TRUE' on an
FLQuantmight return anarrayof less dimensions, amatrixor avector.- value
An object of the same class, or simpler if
drop=TRUE, than 'x'.- name
See Extract for further details.
Details
Operators acting on FLQuant, FLCohort, FLPar, FLComp, and derived classes to extract or replace sections of an object.
Please note the differences between referencing sections of an object by
position using values of class numeric, or by using dimnames of class
character. See examples below.
All classes that are derived from FLComp (for example, FLStock
and FLBiol) can be subset along the six dimensions of their
FLQuant slots.
Classes that are derived from FLlst (for example, FLStocks and
FLBiols) can be subset in a similar way to ordinary list objects.
'$' for the FLPar and FLQuant classes operate only along the first
dimension ('params' or 'quant'), and are provided to be used specially in
formulas.
Examples
flq <- FLQuant(rnorm(200), dimnames=list(age=0:4, year=1991:2000,
season=1:4))
# Extracting by position...
flq[1,]
#> An object of class "FLQuant"
#> , , unit = unique, season = 1, area = unique
#>
#> year
#> age 1991 1992 1993 1994 1995 1996 1997
#> 0 0.424188 1.672883 -0.387214 -0.690538 -0.208883 2.126850 2.039369
#> year
#> age 1998 1999 2000
#> 0 0.022295 -1.146200 0.454342
#>
#> , , unit = unique, season = 2, area = unique
#>
#> year
#> age 1991 1992 1993 1994 1995 1996 1997
#> 0 -0.162676 1.321781 0.429147 0.677684 -1.900061 -0.788259 -0.102909
#> year
#> age 1998 1999 2000
#> 0 1.035931 -1.041668 1.993110
#>
#> , , unit = unique, season = 3, area = unique
#>
#> year
#> age 1991 1992 1993 1994 1995 1996 1997
#> 0 1.123839 0.132992 -0.429380 0.065487 -1.153398 0.075106 -0.338936
#> year
#> age 1998 1999 2000
#> 0 1.233390 0.237425 -0.639535
#>
#> , , unit = unique, season = 4, area = unique
#>
#> year
#> age 1991 1992 1993 1994 1995 1996 1997
#> 0 -0.902815 1.382911 -0.830214 -0.828604 0.149679 -2.102152 0.060899
#> year
#> age 1998 1999 2000
#> 0 1.877744 1.012002 1.129835
#>
#> units: NA
flq[,1:5]
#> An object of class "FLQuant"
#> , , unit = unique, season = 1, area = unique
#>
#> year
#> age 1991 1992 1993 1994 1995
#> 0 0.4241876 1.6728826 -0.3872136 -0.6905379 -0.2088827
#> 1 1.0631020 -0.3543612 -0.7854327 -0.5585420 -1.3994105
#> 2 1.0487126 0.9463479 -1.0567369 -0.5366633 0.2585373
#> 3 -0.0381029 1.3168264 -0.7955414 0.2271271 -0.4417995
#> 4 0.4861489 -0.2966400 -1.7562754 0.9784549 0.5685999
#>
#> , , unit = unique, season = 2, area = unique
#>
#> year
#> age 1991 1992 1993 1994 1995
#> 0 -0.1626763 1.3217810 0.4291474 0.6776836 -1.9000608
#> 1 -0.8273102 -1.1197108 0.1221034 0.0384995 0.9357843
#> 2 1.8765056 0.5145998 -1.1380124 -0.3563812 -0.3090515
#> 3 0.7664402 -1.5090998 -0.5580151 0.7828441 0.2630667
#> 4 0.9799567 1.5327415 1.0525385 0.8044116 -1.7905919
#>
#> , , unit = unique, season = 3, area = unique
#>
#> year
#> age 1991 1992 1993 1994 1995
#> 0 1.1238388 0.1329921 -0.4293801 0.0654866 -1.1533984
#> 1 -0.3970015 0.3764993 1.3604613 -1.0985089 -0.3406379
#> 2 -0.8232612 1.1387077 -0.0708574 -0.6331782 0.7863626
#> 3 -0.5788846 1.2412631 -0.2721537 -2.0636545 -1.2705131
#> 4 1.7637894 0.6120909 -2.4466800 2.6489320 0.5421415
#>
#> , , unit = unique, season = 4, area = unique
#>
#> year
#> age 1991 1992 1993 1994 1995
#> 0 -0.9028149 1.3829109 -0.8302143 -0.8286035 0.1496794
#> 1 1.3176337 0.0031259 -0.5035929 0.2897745 -1.4333211
#> 2 1.1001897 -0.0778868 -1.1936412 -0.4800535 -0.0103033
#> 3 1.2037678 0.4414282 -0.7517233 -0.6048294 -0.2122360
#> 4 -1.4312708 0.1289229 1.4558414 1.4601102 -0.9063402
#>
#> units: NA
flq[1:2,,,c(1,3)]
#> An object of class "FLQuant"
#> , , unit = unique, season = 1, area = unique
#>
#> year
#> age 1991 1992 1993 1994 1995 1996 1997
#> 0 0.424188 1.672883 -0.387214 -0.690538 -0.208883 2.126850 2.039369
#> 1 1.063102 -0.354361 -0.785433 -0.558542 -1.399410 0.424858 0.449454
#> year
#> age 1998 1999 2000
#> 0 0.022295 -1.146200 0.454342
#> 1 0.603611 0.846185 -0.855203
#>
#> , , unit = unique, season = 3, area = unique
#>
#> year
#> age 1991 1992 1993 1994 1995 1996 1997
#> 0 1.123839 0.132992 -0.429380 0.065487 -1.153398 0.075106 -0.338936
#> 1 -0.397001 0.376499 1.360461 -1.098509 -0.340638 0.558514 -0.075574
#> year
#> age 1998 1999 2000
#> 0 1.233390 0.237425 -0.639535
#> 1 0.340424 -1.312814 -0.845196
#>
#> units: NA
# ...by dimnames
flq['0',]
#> An object of class "FLQuant"
#> , , unit = unique, season = 1, area = unique
#>
#> year
#> age 1991 1992 1993 1994 1995 1996 1997
#> 0 0.424188 1.672883 -0.387214 -0.690538 -0.208883 2.126850 2.039369
#> year
#> age 1998 1999 2000
#> 0 0.022295 -1.146200 0.454342
#>
#> , , unit = unique, season = 2, area = unique
#>
#> year
#> age 1991 1992 1993 1994 1995 1996 1997
#> 0 -0.162676 1.321781 0.429147 0.677684 -1.900061 -0.788259 -0.102909
#> year
#> age 1998 1999 2000
#> 0 1.035931 -1.041668 1.993110
#>
#> , , unit = unique, season = 3, area = unique
#>
#> year
#> age 1991 1992 1993 1994 1995 1996 1997
#> 0 1.123839 0.132992 -0.429380 0.065487 -1.153398 0.075106 -0.338936
#> year
#> age 1998 1999 2000
#> 0 1.233390 0.237425 -0.639535
#>
#> , , unit = unique, season = 4, area = unique
#>
#> year
#> age 1991 1992 1993 1994 1995 1996 1997
#> 0 -0.902815 1.382911 -0.830214 -0.828604 0.149679 -2.102152 0.060899
#> year
#> age 1998 1999 2000
#> 0 1.877744 1.012002 1.129835
#>
#> units: NA
flq[,'1991']
#> An object of class "FLQuant"
#> , , unit = unique, season = 1, area = unique
#>
#> year
#> age 1991
#> 0 0.424188
#> 1 1.063102
#> 2 1.048713
#> 3 -0.038103
#> 4 0.486149
#>
#> , , unit = unique, season = 2, area = unique
#>
#> year
#> age 1991
#> 0 -0.162676
#> 1 -0.827310
#> 2 1.876506
#> 3 0.766440
#> 4 0.979957
#>
#> , , unit = unique, season = 3, area = unique
#>
#> year
#> age 1991
#> 0 1.123839
#> 1 -0.397001
#> 2 -0.823261
#> 3 -0.578885
#> 4 1.763789
#>
#> , , unit = unique, season = 4, area = unique
#>
#> year
#> age 1991
#> 0 -0.902815
#> 1 1.317634
#> 2 1.100190
#> 3 1.203768
#> 4 -1.431271
#>
#> units: NA
flq[,as.character(1991:1995),,'1']
#> An object of class "FLQuant"
#> , , unit = unique, season = 1, area = unique
#>
#> year
#> age 1991 1992 1993 1994 1995
#> 0 0.424188 1.672883 -0.387214 -0.690538 -0.208883
#> 1 1.063102 -0.354361 -0.785433 -0.558542 -1.399410
#> 2 1.048713 0.946348 -1.056737 -0.536663 0.258537
#> 3 -0.038103 1.316826 -0.795541 0.227127 -0.441799
#> 4 0.486149 -0.296640 -1.756275 0.978455 0.568600
#>
#> units: NA
# Dimensions of length one can be drop
flq[1, drop=TRUE]
#> [1] 0.4241876
# Replacing part of the object
flq['0',,,1]<-0