R/clean_P4data.R
In ryankinzer/cuyem: Snake River Basin Anadromous Fish Summaries and Metric Estimation
Defines functions
clean_P4Data
Documented in
clean_P4Data
#' @title clean_P4Data:
#'
#' @description Processes raw P4 data and adds important fields for summaries
#'
#' @param data raw CDMS P4 data from get_P4data()
#'
#' @export
#'
#' @import dplyr
#'
#' @author Tyler T. Stright
#'
#' @examples
#' p4_raw <- get_P4Data()
#' p4_clean <- clean_P4Data(p4_raw)
clean_P4Data <- function(data){
{if(is.null(data))stop("P4 data must be supplied")}
# snake_case field names
x <- names(data)
x1 <- str_replace_all(x, '([a-z])([A-Z])([a-z])', '\\1_\\2\\3')
x2 <- str_replace_all(x1, '([a-z])([A-Z])([A-Z])', '\\1_\\2\\3')
x3 <- str_replace_all(x2, '([A-Z])([A-Z])([a-z])', '\\1_\\2\\3')
names(data) <- tolower(x3)
# rename, fix datatypes ----
data_clean <- data %>%
rename(
nfish = pdv1,
trap_start_datetime = spdv1,
trap_end_datetime = spdv2,
hours_sampled = spdv3,
staff_gauge_cm = spdv4,
trap_rpm = spdv5,
weather = spdv6,
operational_condition = spdv7,
staff_gauge_ft= spdv8) %>%
# Do we need to modify other datetime fields? This is acting strange currently (2/8/22)
# update 12/5/2023 -- the datetime format from CDMS changes for some reason.
separate(event_date, into = c('event_date', 'event_time'), sep='T') %>% # event_date is the only trustworthy datetime, filled and standardized by P4
separate(event_time, into = c('event_time', 'gmt_offset'), sep = '-') %>%
# Fixing datatypes
mutate(event_date = lubridate::ymd(event_date),
across(.cols = c(trap_start_datetime, trap_end_datetime), lubridate::mdy_hm),
across(.cols = c(trap_rpm, staff_gauge_ft), as.double),
across(.cols = c(nfish, staff_gauge_cm), as.integer)) %>%
mutate(
pit_tagged = if_else(pit_tag == '..........', FALSE, TRUE),
mark_recap = case_when(
# get marks
event_type == 'Mark' & grepl('\\bTU\\b', text_comments, ignore.case = T) ~ 'mark',
event_type %in% c('Mark', 'Tally') & grepl('\\bCL\\b|\\bCU\\b', conditional_comments, ignore.case = T) ~ 'mark',
# get recaps
grepl('\\bRE\\b', conditional_comments) & grepl('\\bRC\\b', text_comments) ~ 'recap',
grepl('\\bRE\\b', conditional_comments) & grepl('\\bCL\\b|\\bCU\\b', conditional_comments) ~ 'recap',
# exclude DS
grepl('\\bRE\\b', conditional_comments) & grepl('\\bDS\\b', text_comments) ~ 'not used',
# get unmarks
TRUE ~ 'unmark'
),
efficiency_mark = case_when( # Bismark Brown? BBY? ********************
# Tagged sent upstream
event_type == 'Mark' & grepl('\\bTU\\b', text_comments, ignore.case = T) ~ TRUE,
# Caudal Lower/Upper sent upstream
event_type %in% c('Mark', 'Tally') & grepl('\\bCL\\b|\\bCU\\b', conditional_comments, ignore.case = T) ~ TRUE,
TRUE ~ FALSE),
efficiency_recap = case_when(
event_type %in% c('Recapture', 'Recovery') & grepl('\\bRE\\b', conditional_comments) & grepl('\\bRC\\b', text_comments) ~ TRUE,
event_type %in% c('Recapture', 'Recovery') & grepl('\\bRE\\b', conditional_comments) & grepl('\\bCL\\b|\\bCU\\b', conditional_comments) ~ TRUE,
TRUE ~ FALSE),
mortality = if_else(grepl('\\bM\\b', conditional_comments), TRUE, FALSE),
origin = case_when(
grepl('Hat.', srr_verbose) ~ 'Hatchery',
grepl('Wild', srr_verbose) ~ 'Natural',
TRUE ~ NA_character_
),
life_stage = case_when(
# Pacific Lamprey
srr_verbose == 'Pacific Lamprey' & grepl('\\bAM\\b', conditional_comments) ~ 'Ammocoete',
srr_verbose == 'Pacific Lamprey' & grepl('\\bMP\\b', conditional_comments) ~ 'Macropthalmia',
srr_verbose == 'Pacific Lamprey' & grepl('\\bAL\\b', conditional_comments) ~ 'Adult',
# All Hatchery
origin == 'Hatchery' ~ NA_character_, # probably shouldn't just assume 'Smolt'
# Steelhead - may need to update this.
grepl('Steelhead', srr_verbose) & lubridate::month(event_date) %in% c(1:6) ~ 'Winter/Spring',
grepl('Steelhead', srr_verbose) & lubridate::month(event_date) %in% c(7:12) ~ 'Summer/Fall',
# Spring/summer Chinook - this doesn't deal with Fall chinook properly.
grepl('YOY', text_comments) ~ 'YOY',
origin == 'Natural' & lubridate::month(event_date) %in% c(1:6) ~ 'Smolt',
origin == 'Natural' & lubridate::month(event_date) %in% c(7:8) ~ 'Parr',
origin == 'Natural' & lubridate::month(event_date) %in% c(9:12) ~ 'Presmolt',
TRUE ~ NA_character_
),
trap_season = case_when(
lubridate::month(event_date) %in% c(1:6) ~ 'Spring',
lubridate::month(event_date) %in% c(7:8) ~ 'Summer',
lubridate::month(event_date) %in% c(9:12) ~ 'Fall',
),
condition_factor = (weight/length^3)*100000,
target = if_else(species_run_rear_type %in% c('11H', '11W', '12H', '12W', '32W', '32H', '25W', '25H', '7RW', 'A0W'), TRUE, FALSE), # 1=target, 0=incidental
scientific_name = case_when(
srr_verbose %in% c('Unknown', 'Unknown (fish not observed)', 'Other', 'No Fish Day') ~ NA_character_,
grepl('Chinook', srr_verbose) ~ 'Oncorhynchus tshawytscha',
grepl('Steelhead|Rainbow Trout', srr_verbose) ~ 'Oncorhynchus mykiss',
grepl('Coho', srr_verbose) ~ 'Oncorhynchus kisutch',
srr_verbose == 'American Shad' ~ 'Alosa sapidissima',
srr_verbose == 'Bridgelip Sucker' ~ 'Catostomus columbianus',
srr_verbose == 'Brook Trout' ~ 'Salvelinus fontinalis',
srr_verbose == 'Bull Trout' ~ 'Salvelinus confluentus',
srr_verbose == 'Bullhead Catfish' ~ 'Ameiurus sp.', # 3 different in this group?
srr_verbose == 'Channel Catfish' ~ 'Ictalurus punctatus',
srr_verbose == 'Chiselmouth' ~ 'Acrocheilus alutaceus',
srr_verbose == 'Dace species' ~ 'Leuciscus sp.',
srr_verbose == 'Largescale Sucker' ~ 'Castostomus macrocheilus',
srr_verbose == 'Longnose Dace' ~ 'Rhinichthys cataractae',
srr_verbose == 'Mottled Sculpin' ~ 'Cottus bairdii',
srr_verbose == 'Mountain Whitefish' ~ 'Prosopium williamsoni',
srr_verbose == 'Northern Pikeminnow' ~ 'Ptychocheilus oregonensis',
srr_verbose == 'Pacific Lamprey' ~ 'Entosphenus tridentatus',
srr_verbose == 'Peamouth' ~ 'Mylocheilus caurinus',
srr_verbose == 'Redside Shiner' ~ 'Richardsonius balteatus',
srr_verbose == 'Sculpin species' ~ 'Cottus sp.',
srr_verbose == 'Smallmouth Bass' ~ 'Micropterus dolomieu',
srr_verbose == 'Speckled Dace' ~ 'Rhinichthys osculus',
srr_verbose == 'Sucker species' ~ 'Catostomus sp.',
srr_verbose %in% c('Wild Coastal Cutthroat', 'Wild Resident Cutthroat') ~ 'Oncorhynchus clarkii',
srr_verbose == 'Wild Sockeye (unknown run)' ~ 'Oncorhynchus nerka',
TRUE ~ NA_character_
),
family = case_when(
srr_verbose %in% c('Unknown', 'Unknown (fish not observed)', 'Other', 'No Fish Day') ~ NA_character_,
grepl('Chinook', srr_verbose) ~ 'Salmonidae',
grepl('Steelhead|Rainbow Trout', srr_verbose) ~ 'Salmonidae',
grepl('Coho', srr_verbose) ~ 'Salmonidae',
srr_verbose == 'American Shad' ~ 'Clupeidae',
srr_verbose == 'Bridgelip Sucker' ~ 'Catostomidae',
srr_verbose == 'Brook Trout' ~ 'Salmonidae',
srr_verbose == 'Bull Trout' ~ 'Salmonidae',
srr_verbose == 'Bullhead Catfish' ~ 'Ictaluridae',
srr_verbose == 'Channel Catfish' ~ 'Ictaluridae',
srr_verbose == 'Chiselmouth' ~ 'Leuciscidae',
srr_verbose == 'Dace species' ~ 'Cyprinidae',
srr_verbose == 'Largescale Sucker' ~ 'Catostomidae',
srr_verbose == 'Longnose Dace' ~ 'Leuciscidae',
srr_verbose == 'Mottled Sculpin' ~ 'Cottidae',
srr_verbose == 'Mountain Whitefish' ~ 'Salmonidae',
srr_verbose == 'Northern Pikeminnow' ~ 'Leuciscidae',
srr_verbose == 'Pacific Lamprey' ~ 'Petromyzontidae',
srr_verbose == 'Peamouth' ~ 'Cyprinidae',
srr_verbose == 'Redside Shiner' ~ 'Cyprinidae',
srr_verbose == 'Sculpin species' ~ 'Cottidae', # this might not be 100% correct.
srr_verbose == 'Smallmouth Bass' ~ 'Centrarchidae',
srr_verbose == 'Speckled Dace' ~ 'Leuciscidae',
srr_verbose == 'Sucker species' ~ 'Catostomidae',
srr_verbose %in% c('Wild Coastal Cutthroat', 'Wild Resident Cutthroat') ~ 'Salmonidae',
srr_verbose == 'Wild Sockeye (unknown run)' ~ 'Salmonidae',
TRUE ~ NA_character_
),
streamname = case_when(
event_site %in% c('JOHNSC', 'JOHTRP') ~ 'Johnson Creek', # should we have trap site and streamname separate?
event_site == 'SECTRP' ~ 'Secesh River',
event_site == 'IMNTRP' ~ 'Imnaha River',
event_site %in% c('CLWRSF', 'SFCTRP') ~ 'South Fork Clearwater River',
event_site %in% c('LOLOC', 'LOLTRP') ~ 'Lolo Creek',
event_site == 'NEWSOC' ~ 'Newsome Creek',
TRUE ~ NA_character_ # skipped LSFTRP/MCCA/NA/NPTH
),
emigrant_group = case_when(
scientific_name == 'Oncorhynchus tshawytscha' & life_stage == 'Parr' ~ 'Natural Chinook Salmon Parr',
scientific_name == 'Oncorhynchus tshawytscha' & life_stage == 'Presmolt' ~ 'Natural Chinook Salmon Presmolts',
scientific_name == 'Oncorhynchus tshawytscha' & life_stage == 'Smolt' ~ 'Natural Chinook Salmon Smolts',
scientific_name == 'Oncorhynchus tshawytscha' & origin == 'Hatchery' ~ 'Hatchery Chinook Salmon Smolts',
scientific_name == 'Oncorhynchus mykiss' & origin == 'Natural' ~ 'Natural Steelhead Juveniles',
scientific_name == 'Oncorhynchus mykiss' & origin == 'Hatchery' ~ 'Hatchery Steelhead Juveniles',
TRUE ~ NA_character_)
) %>%
# establish emigrant groups? - plot groups?
# get common staff gauge
mutate(staff_gauge = ifelse(!is.na(staff_gauge_ft), staff_gauge_ft, staff_gauge_cm * 2.54 * 12)) %>%
select(event_site, streamname, event_date, event_time, gmt_offset, trap_start_datetime, trap_end_datetime,
hours_sampled, operational_condition, session_note, origin, srr_verbose, species_run_rear_type,
event_type, pit_tag, length, weight, condition_factor, life_stage, nfish, brood_year,
conditional_comments, text_comments, tagger, pit_tagged, efficiency_mark,
efficiency_recap, mortality, target, scientific_name, family, emigrant_group,
everything())
return(data_clean)
}
ryankinzer/cuyem documentation built on April 20, 2024, 2:10 p.m.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
Defines functions clean_P4Data
Documented in clean_P4Data
#' @title clean_P4Data:
#'
#' @description Processes raw P4 data and adds important fields for summaries
#'
#' @param data raw CDMS P4 data from get_P4data()
#'
#' @export
#'
#' @import dplyr
#'
#' @author Tyler T. Stright
#'
#' @examples
#' p4_raw <- get_P4Data()
#' p4_clean <- clean_P4Data(p4_raw)
clean_P4Data <- function(data){
{if(is.null(data))stop("P4 data must be supplied")}
# snake_case field names
x <- names(data)
x1 <- str_replace_all(x, '([a-z])([A-Z])([a-z])', '\\1_\\2\\3')
x2 <- str_replace_all(x1, '([a-z])([A-Z])([A-Z])', '\\1_\\2\\3')
x3 <- str_replace_all(x2, '([A-Z])([A-Z])([a-z])', '\\1_\\2\\3')
names(data) <- tolower(x3)
# rename, fix datatypes ----
data_clean <- data %>%
rename(
nfish = pdv1,
trap_start_datetime = spdv1,
trap_end_datetime = spdv2,
hours_sampled = spdv3,
staff_gauge_cm = spdv4,
trap_rpm = spdv5,
weather = spdv6,
operational_condition = spdv7,
staff_gauge_ft= spdv8) %>%
# Do we need to modify other datetime fields? This is acting strange currently (2/8/22)
# update 12/5/2023 -- the datetime format from CDMS changes for some reason.
separate(event_date, into = c('event_date', 'event_time'), sep='T') %>% # event_date is the only trustworthy datetime, filled and standardized by P4
separate(event_time, into = c('event_time', 'gmt_offset'), sep = '-') %>%
# Fixing datatypes
mutate(event_date = lubridate::ymd(event_date),
across(.cols = c(trap_start_datetime, trap_end_datetime), lubridate::mdy_hm),
across(.cols = c(trap_rpm, staff_gauge_ft), as.double),
across(.cols = c(nfish, staff_gauge_cm), as.integer)) %>%
mutate(
pit_tagged = if_else(pit_tag == '..........', FALSE, TRUE),
mark_recap = case_when(
# get marks
event_type == 'Mark' & grepl('\\bTU\\b', text_comments, ignore.case = T) ~ 'mark',
event_type %in% c('Mark', 'Tally') & grepl('\\bCL\\b|\\bCU\\b', conditional_comments, ignore.case = T) ~ 'mark',
# get recaps
grepl('\\bRE\\b', conditional_comments) & grepl('\\bRC\\b', text_comments) ~ 'recap',
grepl('\\bRE\\b', conditional_comments) & grepl('\\bCL\\b|\\bCU\\b', conditional_comments) ~ 'recap',
# exclude DS
grepl('\\bRE\\b', conditional_comments) & grepl('\\bDS\\b', text_comments) ~ 'not used',
# get unmarks
TRUE ~ 'unmark'
),
efficiency_mark = case_when( # Bismark Brown? BBY? ********************
# Tagged sent upstream
event_type == 'Mark' & grepl('\\bTU\\b', text_comments, ignore.case = T) ~ TRUE,
# Caudal Lower/Upper sent upstream
event_type %in% c('Mark', 'Tally') & grepl('\\bCL\\b|\\bCU\\b', conditional_comments, ignore.case = T) ~ TRUE,
TRUE ~ FALSE),
efficiency_recap = case_when(
event_type %in% c('Recapture', 'Recovery') & grepl('\\bRE\\b', conditional_comments) & grepl('\\bRC\\b', text_comments) ~ TRUE,
event_type %in% c('Recapture', 'Recovery') & grepl('\\bRE\\b', conditional_comments) & grepl('\\bCL\\b|\\bCU\\b', conditional_comments) ~ TRUE,
TRUE ~ FALSE),
mortality = if_else(grepl('\\bM\\b', conditional_comments), TRUE, FALSE),
origin = case_when(
grepl('Hat.', srr_verbose) ~ 'Hatchery',
grepl('Wild', srr_verbose) ~ 'Natural',
TRUE ~ NA_character_
),
life_stage = case_when(
# Pacific Lamprey
srr_verbose == 'Pacific Lamprey' & grepl('\\bAM\\b', conditional_comments) ~ 'Ammocoete',
srr_verbose == 'Pacific Lamprey' & grepl('\\bMP\\b', conditional_comments) ~ 'Macropthalmia',
srr_verbose == 'Pacific Lamprey' & grepl('\\bAL\\b', conditional_comments) ~ 'Adult',
# All Hatchery
origin == 'Hatchery' ~ NA_character_, # probably shouldn't just assume 'Smolt'
# Steelhead - may need to update this.
grepl('Steelhead', srr_verbose) & lubridate::month(event_date) %in% c(1:6) ~ 'Winter/Spring',
grepl('Steelhead', srr_verbose) & lubridate::month(event_date) %in% c(7:12) ~ 'Summer/Fall',
# Spring/summer Chinook - this doesn't deal with Fall chinook properly.
grepl('YOY', text_comments) ~ 'YOY',
origin == 'Natural' & lubridate::month(event_date) %in% c(1:6) ~ 'Smolt',
origin == 'Natural' & lubridate::month(event_date) %in% c(7:8) ~ 'Parr',
origin == 'Natural' & lubridate::month(event_date) %in% c(9:12) ~ 'Presmolt',
TRUE ~ NA_character_
),
trap_season = case_when(
lubridate::month(event_date) %in% c(1:6) ~ 'Spring',
lubridate::month(event_date) %in% c(7:8) ~ 'Summer',
lubridate::month(event_date) %in% c(9:12) ~ 'Fall',
),
condition_factor = (weight/length^3)*100000,
target = if_else(species_run_rear_type %in% c('11H', '11W', '12H', '12W', '32W', '32H', '25W', '25H', '7RW', 'A0W'), TRUE, FALSE), # 1=target, 0=incidental
scientific_name = case_when(
srr_verbose %in% c('Unknown', 'Unknown (fish not observed)', 'Other', 'No Fish Day') ~ NA_character_,
grepl('Chinook', srr_verbose) ~ 'Oncorhynchus tshawytscha',
grepl('Steelhead|Rainbow Trout', srr_verbose) ~ 'Oncorhynchus mykiss',
grepl('Coho', srr_verbose) ~ 'Oncorhynchus kisutch',
srr_verbose == 'American Shad' ~ 'Alosa sapidissima',
srr_verbose == 'Bridgelip Sucker' ~ 'Catostomus columbianus',
srr_verbose == 'Brook Trout' ~ 'Salvelinus fontinalis',
srr_verbose == 'Bull Trout' ~ 'Salvelinus confluentus',
srr_verbose == 'Bullhead Catfish' ~ 'Ameiurus sp.', # 3 different in this group?
srr_verbose == 'Channel Catfish' ~ 'Ictalurus punctatus',
srr_verbose == 'Chiselmouth' ~ 'Acrocheilus alutaceus',
srr_verbose == 'Dace species' ~ 'Leuciscus sp.',
srr_verbose == 'Largescale Sucker' ~ 'Castostomus macrocheilus',
srr_verbose == 'Longnose Dace' ~ 'Rhinichthys cataractae',
srr_verbose == 'Mottled Sculpin' ~ 'Cottus bairdii',
srr_verbose == 'Mountain Whitefish' ~ 'Prosopium williamsoni',
srr_verbose == 'Northern Pikeminnow' ~ 'Ptychocheilus oregonensis',
srr_verbose == 'Pacific Lamprey' ~ 'Entosphenus tridentatus',
srr_verbose == 'Peamouth' ~ 'Mylocheilus caurinus',
srr_verbose == 'Redside Shiner' ~ 'Richardsonius balteatus',
srr_verbose == 'Sculpin species' ~ 'Cottus sp.',
srr_verbose == 'Smallmouth Bass' ~ 'Micropterus dolomieu',
srr_verbose == 'Speckled Dace' ~ 'Rhinichthys osculus',
srr_verbose == 'Sucker species' ~ 'Catostomus sp.',
srr_verbose %in% c('Wild Coastal Cutthroat', 'Wild Resident Cutthroat') ~ 'Oncorhynchus clarkii',
srr_verbose == 'Wild Sockeye (unknown run)' ~ 'Oncorhynchus nerka',
TRUE ~ NA_character_
),
family = case_when(
srr_verbose %in% c('Unknown', 'Unknown (fish not observed)', 'Other', 'No Fish Day') ~ NA_character_,
grepl('Chinook', srr_verbose) ~ 'Salmonidae',
grepl('Steelhead|Rainbow Trout', srr_verbose) ~ 'Salmonidae',
grepl('Coho', srr_verbose) ~ 'Salmonidae',
srr_verbose == 'American Shad' ~ 'Clupeidae',
srr_verbose == 'Bridgelip Sucker' ~ 'Catostomidae',
srr_verbose == 'Brook Trout' ~ 'Salmonidae',
srr_verbose == 'Bull Trout' ~ 'Salmonidae',
srr_verbose == 'Bullhead Catfish' ~ 'Ictaluridae',
srr_verbose == 'Channel Catfish' ~ 'Ictaluridae',
srr_verbose == 'Chiselmouth' ~ 'Leuciscidae',
srr_verbose == 'Dace species' ~ 'Cyprinidae',
srr_verbose == 'Largescale Sucker' ~ 'Catostomidae',
srr_verbose == 'Longnose Dace' ~ 'Leuciscidae',
srr_verbose == 'Mottled Sculpin' ~ 'Cottidae',
srr_verbose == 'Mountain Whitefish' ~ 'Salmonidae',
srr_verbose == 'Northern Pikeminnow' ~ 'Leuciscidae',
srr_verbose == 'Pacific Lamprey' ~ 'Petromyzontidae',
srr_verbose == 'Peamouth' ~ 'Cyprinidae',
srr_verbose == 'Redside Shiner' ~ 'Cyprinidae',
srr_verbose == 'Sculpin species' ~ 'Cottidae', # this might not be 100% correct.
srr_verbose == 'Smallmouth Bass' ~ 'Centrarchidae',
srr_verbose == 'Speckled Dace' ~ 'Leuciscidae',
srr_verbose == 'Sucker species' ~ 'Catostomidae',
srr_verbose %in% c('Wild Coastal Cutthroat', 'Wild Resident Cutthroat') ~ 'Salmonidae',
srr_verbose == 'Wild Sockeye (unknown run)' ~ 'Salmonidae',
TRUE ~ NA_character_
),
streamname = case_when(
event_site %in% c('JOHNSC', 'JOHTRP') ~ 'Johnson Creek', # should we have trap site and streamname separate?
event_site == 'SECTRP' ~ 'Secesh River',
event_site == 'IMNTRP' ~ 'Imnaha River',
event_site %in% c('CLWRSF', 'SFCTRP') ~ 'South Fork Clearwater River',
event_site %in% c('LOLOC', 'LOLTRP') ~ 'Lolo Creek',
event_site == 'NEWSOC' ~ 'Newsome Creek',
TRUE ~ NA_character_ # skipped LSFTRP/MCCA/NA/NPTH
),
emigrant_group = case_when(
scientific_name == 'Oncorhynchus tshawytscha' & life_stage == 'Parr' ~ 'Natural Chinook Salmon Parr',
scientific_name == 'Oncorhynchus tshawytscha' & life_stage == 'Presmolt' ~ 'Natural Chinook Salmon Presmolts',
scientific_name == 'Oncorhynchus tshawytscha' & life_stage == 'Smolt' ~ 'Natural Chinook Salmon Smolts',
scientific_name == 'Oncorhynchus tshawytscha' & origin == 'Hatchery' ~ 'Hatchery Chinook Salmon Smolts',
scientific_name == 'Oncorhynchus mykiss' & origin == 'Natural' ~ 'Natural Steelhead Juveniles',
scientific_name == 'Oncorhynchus mykiss' & origin == 'Hatchery' ~ 'Hatchery Steelhead Juveniles',
TRUE ~ NA_character_)
) %>%
# establish emigrant groups? - plot groups?
# get common staff gauge
mutate(staff_gauge = ifelse(!is.na(staff_gauge_ft), staff_gauge_ft, staff_gauge_cm * 2.54 * 12)) %>%
select(event_site, streamname, event_date, event_time, gmt_offset, trap_start_datetime, trap_end_datetime,
hours_sampled, operational_condition, session_note, origin, srr_verbose, species_run_rear_type,
event_type, pit_tag, length, weight, condition_factor, life_stage, nfish, brood_year,
conditional_comments, text_comments, tagger, pit_tagged, efficiency_mark,
efficiency_recap, mortality, target, scientific_name, family, emigrant_group,
everything())
return(data_clean)
}
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.