R/data.R

In RodolfoPelinson/PredatorIsolationStochasticity: Data Analyses for Pelinson et al 2021B

#' Abundances for the second and third surveys
#'
#'
#' @format Numerical vector w/ with 44 observations
#' @source {Experimental Data}
"com_SS2_SS3_abundance"


#' Pond IDs for the second and third surveys
#'
#' @format Factor w/ 24 levels and 44 observations
#' @source {Experimental Data}
"ID_SS2_SS3"

#' Sampling Survey identities for the second and third surveys
#'
#' @format Factor w/ 2 levels: "1","2", and 44 observations
#' @source {Experimental Data}
"SS_SS2_SS3"

#' Isolation identities for the second and third surveys
#'
#' @format Factor w/ 3 levels: "30","120", "480" and 44 observations
#' @source {Experimental Data}
"isolation_SS2_SS3"

#' Fish treatment identities for the second and third surveys
#'
#' @format Factor w/ 2 levels: "absent","present", and 44 observations
#' @source {Experimental Data}
"fish_SS2_SS3"

#' Fish, isolation and survey identities combined for the second and third surveys
#'
#' @format Factor w/ 12 levels and 44 observations
#' @source {Experimental Data}
"All"

#' Traits and other relevant information for the first survey only
#'
#' Traits and other relevant information about each taxa sampled
#'
#' @format A data frame with 18 rows or 'observations' and 16 variables:
#' \describe{
#'   \item{species}{Factor variable: Ids of the sampled taxa}
#'   \item{trophic}{Factor variable: Trophic level of the sampled taxa}
#'   \item{microhabitat}{Factor variable: Microhabitat level of the sampled taxa}
#'   \item{volume}{Numeric variable: Volume of the largest individual of each sampled taxa}
#'   \item{mass}{Numeric variable: Wet mass of the largest individual of each sampled taxa}
#'   \item{volume_log}{Numeric variable: Log transformed volume of the largest individual of each sampled taxa}
#'   \item{family}{Character variable: Family of each sampled taxa}
#'   \item{order}{Character variable:  Order of each sampled taxa}
#'   \item{total_ab}{Numeric variable: Total abundance of each sampled taxa considering all surveys}
#'   \item{total_ab_log}{Numeric variable: Log transformed total abundance of each sampled taxa considering all surveys}
#'   \item{total_ab_SS1}{Numeric variable: Total abundance of each sampled taxa considering the first survey}
#'   \item{total_ab_SS2}{Numeric variable: Total abundance of each sampled taxa considering the second survey}
#'   \item{total_ab_SS3}{Numeric variable: Total abundance of each sampled taxa considering the third survey}
#'   \item{total_ab_SS1_log}{Numeric variable: Log transformed total abundance of each sampled taxa considering the first survey}
#'   \item{total_ab_SS2_log}{Numeric variable: Log transformed total abundance of each sampled taxa considering the second survey}
#'   \item{total_ab_SS3_log}{Numeric variable: Log transformed total abundance of each sampled taxa considering the third survey}
#' }
#' @source {Experimental Data}
"Trait_SS1"


#' Traits and other relevant information for the second survey only
#'
#' Traits and other relevant information about each taxa sampled
#'
#' @format A data frame with 30 rows or 'observations' and 16 variables:
#' \describe{
#'   \item{species}{Factor variable: Ids of the sampled taxa}
#'   \item{trophic}{Factor variable: Trophic level of the sampled taxa}
#'   \item{microhabitat}{Factor variable: Microhabitat level of the sampled taxa}
#'   \item{volume}{Numeric variable: Volume of the largest individual of each sampled taxa}
#'   \item{mass}{Numeric variable: Wet mass of the largest individual of each sampled taxa}
#'   \item{volume_log}{Numeric variable: Log transformed volume of the largest individual of each sampled taxa}
#'   \item{family}{Character variable: Family of each sampled taxa}
#'   \item{order}{Character variable:  Order of each sampled taxa}
#'   \item{total_ab}{Numeric variable: Total abundance of each sampled taxa considering all surveys}
#'   \item{total_ab_log}{Numeric variable: Log transformed total abundance of each sampled taxa considering all surveys}
#'   \item{total_ab_SS1}{Numeric variable: Total abundance of each sampled taxa considering the first survey}
#'   \item{total_ab_SS2}{Numeric variable: Total abundance of each sampled taxa considering the second survey}
#'   \item{total_ab_SS3}{Numeric variable: Total abundance of each sampled taxa considering the third survey}
#'   \item{total_ab_SS1_log}{Numeric variable: Log transformed total abundance of each sampled taxa considering the first survey}
#'   \item{total_ab_SS2_log}{Numeric variable: Log transformed total abundance of each sampled taxa considering the second survey}
#'   \item{total_ab_SS3_log}{Numeric variable: Log transformed total abundance of each sampled taxa considering the third survey}
#' }
#' @source {Experimental Data}
"Trait_SS2"


#' Traits and other relevant information considering for the third survey only
#'
#' Traits and other relevant information about each taxa sampled
#'
#' @format A data frame with 29 rows or 'observations' and 16 variables:
#' \describe{
#'   \item{species}{Factor variable: Ids of the sampled taxa}
#'   \item{trophic}{Factor variable: Trophic level of the sampled taxa}
#'   \item{microhabitat}{Factor variable: Microhabitat level of the sampled taxa}
#'   \item{volume}{Numeric variable: Volume of the largest individual of each sampled taxa}
#'   \item{mass}{Numeric variable: Wet mass of the largest individual of each sampled taxa}
#'   \item{volume_log}{Numeric variable: Log transformed volume of the largest individual of each sampled taxa}
#'   \item{family}{Character variable: Family of each sampled taxa}
#'   \item{order}{Character variable:  Order of each sampled taxa}
#'   \item{total_ab}{Numeric variable: Total abundance of each sampled taxa considering all surveys}
#'   \item{total_ab_log}{Numeric variable: Log transformed total abundance of each sampled taxa considering all surveys}
#'   \item{total_ab_SS1}{Numeric variable: Total abundance of each sampled taxa considering the first survey}
#'   \item{total_ab_SS2}{Numeric variable: Total abundance of each sampled taxa considering the second survey}
#'   \item{total_ab_SS3}{Numeric variable: Total abundance of each sampled taxa considering the third survey}
#'   \item{total_ab_SS1_log}{Numeric variable: Log transformed total abundance of each sampled taxa considering the first survey}
#'   \item{total_ab_SS2_log}{Numeric variable: Log transformed total abundance of each sampled taxa considering the second survey}
#'   \item{total_ab_SS3_log}{Numeric variable: Log transformed total abundance of each sampled taxa considering the third survey}
#' }
#' @source {Experimental Data}
"Trait_SS3"

#' Traits and other relevant information considering the second and third surveys only
#'
#' Traits and other relevant information about each taxa sampled
#'
#' @format A data frame with 36 rows or 'observations' and 16 variables:
#' \describe{
#'   \item{species}{Factor variable: Ids of the sampled taxa}
#'   \item{trophic}{Factor variable: Trophic level of the sampled taxa}
#'   \item{microhabitat}{Factor variable: Microhabitat level of the sampled taxa}
#'   \item{volume}{Numeric variable: Volume of the largest individual of each sampled taxa}
#'   \item{mass}{Numeric variable: Wet mass of the largest individual of each sampled taxa}
#'   \item{volume_log}{Numeric variable: Log transformed volume of the largest individual of each sampled taxa}
#'   \item{family}{Character variable: Family of each sampled taxa}
#'   \item{order}{Character variable:  Order of each sampled taxa}
#'   \item{total_ab}{Numeric variable: Total abundance of each sampled taxa considering all surveys}
#'   \item{total_ab_log}{Numeric variable: Log transformed total abundance of each sampled taxa considering all surveys}
#'   \item{total_ab_SS1}{Numeric variable: Total abundance of each sampled taxa considering the first survey}
#'   \item{total_ab_SS2}{Numeric variable: Total abundance of each sampled taxa considering the second survey}
#'   \item{total_ab_SS3}{Numeric variable: Total abundance of each sampled taxa considering the third survey}
#'   \item{total_ab_SS1_log}{Numeric variable: Log transformed total abundance of each sampled taxa considering the first survey}
#'   \item{total_ab_SS2_log}{Numeric variable: Log transformed total abundance of each sampled taxa considering the second survey}
#'   \item{total_ab_SS3_log}{Numeric variable: Log transformed total abundance of each sampled taxa considering the third survey}
#' }
#' @source {Experimental Data}
"Trait_SS2_SS3"



#' Taxa abundances for the second and third surveys
#'
#' A dataset containing the abundances of the taxa that were present in the second and third surveys.
#'
#' @format A data frame with 44 rows or 'observations' and 24 variables or 'taxa':
#' @source {Experimental Data}
"com_SS2_SS3"


#' Taxa abundances for predatory insects at the second and third surveys
#'
#' A dataset containing the abundances of the predatory insects that were present in the second and third surveys.
#'
#' @format A data frame with 44 rows or 'observations' and 8 variables or 'taxa':
#' @source {Experimental Data}
"com_SS2_SS3_predators"


#' Taxa abundances for non-predatory insects at the second and third surveys
#'
#' A dataset containing the abundances of the non predatory insects (herbivores and detritivores) that were present in the second and third surveys.
#'
#' @format A data frame with 44 rows or 'observations' and 16 variables or 'taxa':
#' @source {Experimental Data}
"com_SS2_SS3_non_predators"


#' Abundances for predatory insects at the second and third surveys
#'
#'
#' @format Numerical vector w/ with 44 observations
#' @source {Experimental Data}
"com_SS2_SS3_predators_abundance"


#' Abundances for non-predatory insects (herbivores and detritivores) at the second and third surveys
#'
#'
#' @format Numerical vector w/ with 44 observations
#' @source {Experimental Data}
"com_SS2_SS3_non_predators_abundance"



#' Richness for the second and third surveys
#'
#'
#' @format Numerical vector w/ with 44 observations
#' @source {Experimental Data}
"com_SS2_SS3_richness"

#' Richness for predatory insects at the second and third surveys
#'
#'
#' @format Numerical vector w/ with 44 observations
#' @source {Experimental Data}
"com_SS2_SS3_predators_richness"


#' Richness for non-predatory insects (herbivores and detritivores) at the second and third surveys
#'
#'
#' @format Numerical vector w/ with 44 observations
#' @source {Experimental Data}
"com_SS2_SS3_non_predators_richness"



#' Taxa abundances for the First survey
#'
#' A dataset containing the abundances of the taxa that were present in the first and third surveys.
#'
#' @format A data frame with 24 rows or 'observations' and 18 variables or 'taxa':
#' @source {Experimental Data}
"com_SS1"

#' Taxa abundances for the Second survey
#'
#' A dataset containing the abundances of the taxa that were present in the second and third surveys.
#'
#' @format A data frame with 24 rows or 'observations' and 30 variables or 'taxa':
#' @source {Experimental Data}
"com_SS2"


#' Taxa abundances for the Third survey
#'
#' A dataset containing the abundances of the taxa that were present in the third and third surveys.
#'
#' @format A data frame with 20 rows or 'observations' and 29 variables or 'taxa':
#' @source {Experimental Data}
"com_SS3"


#' Taxa abundances of predatory insects for the First survey
#'
#' A dataset containing the abundances of predatory taxa that were present in the first and third surveys.
#'
#' @format A data frame with 24 rows or 'observations' and 18 variables or 'taxa':
#' @source {Experimental Data}
"com_SS1_predators"

#' Taxa abundances of predatory insects for the Second survey
#'
#' A dataset containing the abundances of predatory taxa that were present in the second and third surveys.
#'
#' @format A data frame with 24 rows or 'observations' and 30 variables or 'taxa':
#' @source {Experimental Data}
"com_SS2_predators"


#' Taxa abundances of predatory insects for the Third survey
#'
#' A dataset containing the abundances of predatory taxa that were present in the third and third surveys.
#'
#' @format A data frame with 20 rows or 'observations' and 29 variables or 'taxa':
#' @source {Experimental Data}
"com_SS3_predators"


#' Taxa abundances of non-predatory insects for the First survey
#'
#' A dataset containing the abundances of non-predatory taxa that were present in the first and third surveys.
#'
#' @format A data frame with 24 rows or 'observations' and 18 variables or 'taxa':
#' @source {Experimental Data}
"com_SS1_non_predators"

#' Taxa abundances of non-predatory insects for the Second survey
#'
#' A dataset containing the abundances of non-predatory taxa that were present in the second and third surveys.
#'
#' @format A data frame with 24 rows or 'observations' and 30 variables or 'taxa':
#' @source {Experimental Data}
"com_SS2_non_predators"


#' Taxa abundances of non-predatory insects for the Third survey
#'
#' A dataset containing the abundances of non-predatory taxa that were present in the third and third surveys.
#'
#' @format A data frame with 20 rows or 'observations' and 29 variables or 'taxa':
#' @source {Experimental Data}
"com_SS3_non_predators"


#' Fish treatment identities for the First survey
#'
#' @format Factor w/ 2 levels: "absent","present", and 24 observations
#' @source {Experimental Data}
"fish_SS1"

#' Fish treatment identities for the Second survey
#'
#' @format Factor w/ 2 levels: "absent","present", and 24 observations
#' @source {Experimental Data}
"fish_SS2"

#' Fish treatment identities for the Third survey
#'
#' @format Factor w/ 2 levels: "absent","present", and 20 observations
#' @source {Experimental Data}
"fish_SS3"

#' Isolation treatment identities for the First survey
#'
#' @format Factor w/ 3 levels: "030","120","480", and 24 observations
#' @source {Experimental Data}
"isolation_SS1"

#' Isolation treatment identities for the Second survey
#'
#' @format Factor w/ 3 levels: "030","120","480", and 24 observations
#' @source {Experimental Data}
"isolation_SS2"

#' Isolation treatment identities for the Third survey
#'
#' @format Factor w/ 3 levels: "030","120","480", and 20 observations
#' @source {Experimental Data}
"isolation_SS3"


#' Isolation and fish treatment identities for the First survey
#'
#' @format Factor w/ 3 levels: "030","120","480", and 24 observations
#' @source {Experimental Data}
"fish_isolation_SS1"

#' Isolation and fish treatment identities for the Second survey
#'
#' @format Factor w/ 3 levels: "030","120","480", and 24 observations
#' @source {Experimental Data}
"fish_isolation_SS2"

#' Isolation and fish treatment identities for the Third survey
#'
#' @format Factor w/ 3 levels: "030","120","480", and 20 observations
#' @source {Experimental Data}
"fish_isolation_SS3"


#' Environmental variables in all surveys
#'
#' @format A data frame with 72 rows or 'observations' and 10 variables:
#' \describe{
#'   \item{pond}{Pond IDs}
#'   \item{survey}{One of the three surveys}
#'   \item{depth}{Average depth (cm) of each pond}
#'   \item{conductivity}{Water conductivity of each pond in each survey}
#'   \item{ph}{Water pH in each pond in each survey}
#'   \item{do}{Dissolved Oxygen (mg/L) in each pond in each survey}
#'   \item{turbidity}{Water turbidity (NTU) in each pond in each survey}
#'   \item{clorophylla_a}{Clorophylla-a values in each pond in each survey}
#'   \item{phycocyanin}{Phycocyanin values in each pond in each survey}
#'   \item{canopy}{Average canopy cover value (%) in each pond in each survey}
#' }
#' @source {Experimental Data}
"env_data_all"



#' Environmental variables in the first survey
#'
#' @format A data frame with 24 rows or 'observations' and 8 variables:
#' \describe{
#'   \item{depth}{Average depth (cm) of each pond}
#'   \item{conductivity}{Water conductivity of each pond}
#'   \item{ph}{Water pH in each pond}
#'   \item{do}{Dissolved Oxygen (mg/L) in each pond}
#'   \item{turbidity}{Water turbidity (NTU) in each pond}
#'   \item{clorophylla_a}{Clorophylla-a values in each pond}
#'   \item{phycocyanin}{Phycocyanin values in each pond}
#'   \item{canopy}{Average canopy cover value (%) in each pond}
#' }
#' @source {Experimental Data}
"env_data_SS1"

#' Environmental variables in the second survey
#'
#' @format A data frame with 24 rows or 'observations' and 8 variables:
#' \describe{
#'   \item{depth}{Average depth (cm) of each pond}
#'   \item{conductivity}{Water conductivity of each pond}
#'   \item{ph}{Water pH in each pond}
#'   \item{do}{Dissolved Oxygen (mg/L) in each pond}
#'   \item{turbidity}{Water turbidity (NTU) in each pond}
#'   \item{clorophylla_a}{Clorophylla-a values in each pond}
#'   \item{phycocyanin}{Phycocyanin values in each pond}
#'   \item{canopy}{Average canopy cover value (%) in each pond}
#' }
#' @source {Experimental Data}
"env_data_SS2"

#' Environmental variables in the third survey
#'
#' @format A data frame with 20 rows or 'observations' and 8 variables:
#' \describe{
#'   \item{depth}{Average depth (cm) of each pond}
#'   \item{conductivity}{Water conductivity of each pond}
#'   \item{ph}{Water pH in each pond}
#'   \item{do}{Dissolved Oxygen (mg/L) in each pond}
#'   \item{turbidity}{Water turbidity (NTU) in each pond}
#'   \item{clorophylla_a}{Clorophylla-a values in each pond}
#'   \item{phycocyanin}{Phycocyanin values in each pond}
#'   \item{canopy}{Average canopy cover value (%) in each pond}
#' }
#' @source {Experimental Data}
"env_data_SS3"


#' Environmental variables in the second and third surveys
#'
#' @format A data frame with 20 rows or 'observations' and 8 variables:
#' \describe{
#'   \item{depth}{Average depth (cm) of each pond}
#'   \item{conductivity}{Water conductivity of each pond}
#'   \item{ph}{Water pH in each pond}
#'   \item{do}{Dissolved Oxygen (mg/L) in each pond}
#'   \item{turbidity}{Water turbidity (NTU) in each pond}
#'   \item{clorophylla_a}{Clorophylla-a values in each pond}
#'   \item{phycocyanin}{Phycocyanin values in each pond}
#'   \item{canopy}{Average canopy cover value (%) in each pond}
#' }
#' @source {Experimental Data}
"env_data_SS2_SS3"