Slides and example for third session
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# codebook_generation_01.R
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#
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# Code generation example
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#
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# Input: results/data_rdm-ms-ss2024_cleaned.RData
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# Output:
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#
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# created: 2024-06-04
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# setwd("C:/Users/nwickelmaier/Nextcloud/Documents/teaching/iwm/data_management/03_data_organisation/example/")
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load("data/results/data_rdm-ms-ss2024_cleaned.RData")
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codebook <- data.frame(var_name = names(dat),
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var_text = c("Response Id", "Please indicate your sex.",
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"How old are you? Please enter your age in years.",
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"Have you ever published data in a repository?",
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"How many of your data sets have you published so far?",
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"All my analyses are preregistered",
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"Sharing my data is very important to me",
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"I invest more time in research data management than my colleagues",
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"I think research data management is overrated",
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"Sharing data is bad scientific practice",
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"What is your current career level?",
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"How long have you been working in science (in years)?")
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)
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codebook$type <- sapply(dat, class)
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codebook$n <- sapply(dat, length)
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codebook$mean <- sapply(dat, function(x) ifelse(is.numeric(x), mean(x, na.rm = TRUE), NA))
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codebook$sd <- sapply(dat, function(x) ifelse(is.numeric(x), sd(x), NA))
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write.table(codebook,
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file = "data/codebook/codebook_01.csv",
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na = "",
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sep = ";",
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quote = FALSE)
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openxlsx::write.xlsx(codebook, file = "data/codebook/codebook_01.xlsx")
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var_name;var_text;type;n;mean;sd
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1;ResponseId;Response Id;factor;13;;
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2;age;Please indicate your sex.;integer;13;29.6923076923077;5.99144689515278
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3;sex;How old are you? Please enter your age in years.;factor;13;;
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4;data_sharing_1;Have you ever published data in a repository?;factor;13;;
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5;data_sharing_2;How many of your data sets have you published so far?;numeric;13;2.30769230769231;1.65250392761083
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6;rdm_stmnt_1;All my analyses are preregistered;numeric;13;4.15384615384615;1.14354374979373
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7;rdm_stmnt_2;Sharing my data is very important to me;numeric;13;4;
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8;rdm_stmnt_3;I invest more time in research data management than my colleagues;numeric;13;2.84615384615385;0.800640769025436
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9;rdm_stmnt_4;I think research data management is overrated;numeric;13;1.15384615384615;0.375533808099405
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10;rdm_stmnt_5;Sharing data is bad scientific practice;numeric;13;1.15384615384615;0.375533808099405
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11;career_level_1;What is your current career level?;factor;13;;
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12;career_level_2;How long have you been working in science (in years)?;numeric;13;6.26923076923077;10.1788493632126
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# codebook_generation_01.R
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#
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# Code generation example
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#
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# Input: results/data_rdm-ms-ss2024_cleaned.RData
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# Output:
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#
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# created: 2024-06-04
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# setwd("C:/Users/nwickelmaier/Nextcloud/Documents/teaching/iwm/data_management/03_data_organisation/example/")
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dat <- as.data.frame(haven::read_spss("data/rawdata/RDM_MS_SS2024_download_2024-06-04.sav"))
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## Fix data_sharing_2
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dat$data_sharing_2[dat$data_sharing_2 == "1 out of 4"] <- 1
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# Look at attributes
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attributes(dat$sex)
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# Create codebook with survey questions
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codebook <- data.frame(variable = names(dat),
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label = sapply(dat, function(x) attr(x, "label")))
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# Clean up data frame
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dat <- as.data.frame(lapply(dat, sjlabelled::unlabel))
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sapply(dat, class) # Look at classes
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dat$age <- as.numeric(dat$age)
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dat$career_level_2 <- as.numeric(dat$career_level_2)
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dat$data_sharing_2 <- as.numeric(dat$data_sharing_2)
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dat$sex <- factor(dat$sex,
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levels = 1:4,
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labels = names(attr(dat$sex, "labels")))
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dat$data_sharing_1 <- factor(dat$data_sharing_1,
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levels = 1:2,
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labels = names(attr(dat$data_sharing_1, "labels")))
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dat$career_level_1 <- factor(dat$career_level_1,
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levels = 1:6,
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labels = names(attr(dat$career_level_1, "labels")))
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# Add descriptive statistics to codebook
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codebook$n <- sapply(dat, length)
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codebook$type <- sapply(dat, class)
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codebook$mean <- sapply(dat, function(x) ifelse(is.numeric(x), mean(x, na.rm = TRUE), NA))
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codebook$sd <- sapply(dat, function(x) ifelse(is.numeric(x), sd(x), NA))
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# props <- function(x) {
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# if (is.factor(x)) {
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# proportions(summary(x))
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# } else {
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# NA
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# }
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# }
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#
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# codebook$prop <- lapply(dat, props)
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write.table(codebook,
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file = "data/codebook/codebook_02.csv",
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na = "",
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sep = ";",
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quote = FALSE)
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openxlsx::write.xlsx(codebook, file = "data/codebook/codebook_02.xlsx")
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variable;label;n;type;mean;sd
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ResponseId;ResponseId;Response ID;13;character;;
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age;age;How old are you? Please enter your age in years.;13;numeric;29.6923076923077;5.99144689515278
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sex;sex;Please indicate your sex.;13;factor;;
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data_sharing_1;data_sharing_1;Have you ever published data in a repository?;13;factor;;
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data_sharing_2;data_sharing_2;How many of your data sets have you published so far?;13;numeric;1.38461538461538;1.85015591858549
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rdm_stmnt_1;rdm_stmnt_1;Please indicate how much you agree with the following statements - All my analyses are preregistered;13;numeric;4.15384615384615;1.14354374979373
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rdm_stmnt_2;rdm_stmnt_2;Please indicate how much you agree with the following statements - Sharing my data is very important to me;13;numeric;4;
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rdm_stmnt_3;rdm_stmnt_3;Please indicate how much you agree with the following statements - I invest more time in research data management than my colleagues;13;numeric;2.84615384615385;0.800640769025436
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rdm_stmnt_4;rdm_stmnt_4;Please indicate how much you agree with the following statements - I think research data management is overrated;13;numeric;1.84615384615385;0.987096233585649
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rdm_stmnt_5;rdm_stmnt_5;Please indicate how much you agree with the following statements - Sharing data is bad scientific practice;13;numeric;1.15384615384615;0.375533808099405
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career_level_1;career_level_1;What is your current career level?;13;factor;;
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career_level_2;career_level_2;How long have you been working in science (in years)?;13;numeric;6.26923076923077;10.1788493632126
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#' ---
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#' title: Codebook for Data Set "RDM MS SS 2024"
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#' author: Nora Wickelmaier
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#' ---
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#+ echo = FALSE
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dat <- haven::read_spss("../rawdata/RDM_MS_SS2024_download_2024-06-04.sav")
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codebook::codebook(dat)
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###############################################################################
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This file contains an overview of the variables from a toy data set collected
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at the methods seminar SS 2024. The raw data contain in
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"RDM_MS_SS2024_download_2024-06-03_v1.csv" contain additional variables
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created by Qualtrics. The variables have been preprocessed and are stored in
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"data_rdm-ms-ss2024_cleaned.csv".
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###############################################################################
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ResponseId. <Qualtrics ID of subject>
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-------------------------------------------------------------------------------
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random sequence of numbers, letters, and underscore
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sex. Please indicate your sex.
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-------------------------------------------------------------------------------
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-1. m
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-2. f
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-3. d
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-4. not indicated
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age. How old are you? Please enter your age in years.
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-------------------------------------------------------------------------------
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numerical input
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data_sharing_1. Have you ever published data in a repository?
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-------------------------------------------------------------------------------
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-1. No
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-2. Yes
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data_sharing_2. How many of your data sets have you published so far?
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-------------------------------------------------------------------------------
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numerical input
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rdm_stmnt. Please indicate how much you agree with the following statements:
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rdm_stmnt_1. All my analyses are preregistered
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-------------------------------------------------------------------------------
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-1. Strongly disagree
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-2. Disagree
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-3. Neither agree nor disagree
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-4. Agree
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-5. Strongly agree
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rdm_stmnt_2. Sharing my data is very important to me
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-------------------------------------------------------------------------------
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-1. Strongly disagree
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-2. Disagree
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-3. Neither agree nor disagree
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-4. Agree
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-5. Strongly agree
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rdm_stmnt_3. I invest more time in research data management than my colleagues
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-------------------------------------------------------------------------------
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-1. Strongly disagree
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-2. Disagree
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-3. Neither agree nor disagree
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-4. Agree
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-5. Strongly agree
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rdm_stmnt_4. I think research data management is overrated
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-------------------------------------------------------------------------------
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-1. Strongly disagree
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-2. Disagree
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-3. Neither agree nor disagree
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-4. Agree
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-5. Strongly agree
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rdm_stmnt_5. Sharing data is bad scientific practice
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-------------------------------------------------------------------------------
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-1. Strongly disagree
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-2. Disagree
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-3. Neither agree nor disagree
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-4. Agree
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-5. Strongly agree
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career_level_1. What is your current career level?
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-------------------------------------------------------------------------------
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-1. Student
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-2. PhD student
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-3. Postdoc
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-4. Senior researcher
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-5 Professor
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-6. Other
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career_level_2. How long have you been working in science (in years)?
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-------------------------------------------------------------------------------
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numerical input
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ResponseId,age,sex,data_sharing_1,data_sharing_2,rdm_stmnt_1,rdm_stmnt_2,rdm_stmnt_3,rdm_stmnt_4,rdm_stmnt_5,career_level_1,career_level_2
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Response ID,How old are you? Please enter your age in years.,Please indicate your sex.,Have you ever published data in a repository?,How many of your data sets have you published so far?,Please indicate how much you agree with the following statements - All my analyses are preregistered,Please indicate how much you agree with the following statements - Sharing my data is very important to me,Please indicate how much you agree with the following statements - I invest more time in research data management than my colleagues,Please indicate how much you agree with the following statements - I think research data management is overrated,Please indicate how much you agree with the following statements - Sharing data is bad scientific practice,What is your current career level?,How long have you been working in science (in years)?
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"{""ImportId"":""_recordId""}","{""ImportId"":""QID3_TEXT""}","{""ImportId"":""QID1""}","{""ImportId"":""QID4""}","{""ImportId"":""QID7_TEXT""}","{""ImportId"":""QID2_1""}","{""ImportId"":""QID2_2""}","{""ImportId"":""QID2_3""}","{""ImportId"":""QID2_4""}","{""ImportId"":""QID2_5""}","{""ImportId"":""QID8""}","{""ImportId"":""QID9_TEXT""}"
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R_8q7OpSkcuPT7SbI,42,f,No,1,Neither agree nor disagree,Agree,Strongly agree,Strongly disagree,Strongly disagree,Other,14
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R_8Io4pbk0A1a37VL,28,f,Yes,1,Strongly agree,,Neither agree nor disagree,Disagree,Strongly disagree,PhD student,1
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R_2J9B4aLaasQ1m81,28,f,Yes,1 out of 4,Strongly agree,Strongly agree,Disagree,Disagree,Strongly disagree,PhD student,3
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R_80kqWr3W48SgiUZ,43,f,Yes,6,Agree,Agree,Neither agree nor disagree,Disagree,Strongly disagree,PhD student,3
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R_8QpI8T0rjTjaPPr,30,f,Yes,4,Strongly agree,Agree,Neither agree nor disagree,Strongly disagree,Strongly disagree,PhD student,5
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R_8QoVv6THz1Qjtuz,28,f,Yes,1,Disagree,Disagree,Disagree,Agree,Strongly disagree,Professor,38
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R_2F9fXxf3NedHqZl,25,d,No,0,Agree,Strongly agree,Disagree,Neither agree nor disagree,Disagree,PhD student,2
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R_2foYj4iSgaBTkEO,24,f,No,0,Strongly agree,Strongly agree,Neither agree nor disagree,Strongly disagree,Strongly disagree,PhD student,1
|
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R_83T6Oak5vI6GNJ7,30,f,Yes,1,Strongly agree,Agree,Neither agree nor disagree,Neither agree nor disagree,Strongly disagree,Postdoc,7
|
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R_2Vz26rWsOLYwqnD,25,m,Yes,3,Agree,Agree,Neither agree nor disagree,Disagree,Disagree,PhD student,2
|
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R_8HcBgUUm1BXFfhv,29,m,No,0,Strongly agree,Disagree,Disagree,Strongly disagree,Strongly disagree,PhD student,3
|
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R_2P1TMDNlwm0gSIk,26,f,No,0,Disagree,Agree,Neither agree nor disagree,Strongly disagree,Strongly disagree,PhD student,1.5
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R_225ffqhb7qRaIGO,28,f,No,0,Strongly agree,Strongly agree,Neither agree nor disagree,Strongly disagree,Strongly disagree,PhD student,1
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* Encoding: UTF-8.
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TITLE "RDM_MS_SS2024".
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SUBTITLE "".
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VARIABLE LABELS
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ResponseId "Response ID"
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age "How old are you? Please enter your age in years."
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sex "Please indicate your sex."
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data_sharing_1 "Have you ever published data in a repository?"
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data_sharing_2 "How many of your data sets have you published so far?"
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rdm_stmnt_1 "Please indicate how much you agree with the following statements - All my analyses are preregistered"
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rdm_stmnt_2 "Please indicate how much you agree with the following statements - Sharing my data is very important to me"
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rdm_stmnt_3 "Please indicate how much you agree with the following statements - I invest more time in research data management than my colleagues"
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rdm_stmnt_4 "Please indicate how much you agree with the following statements - I think research data management is overrated"
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rdm_stmnt_5 "Please indicate how much you agree with the following statements - Sharing data is bad scientific practice"
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career_level_1 "What is your current career level?"
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career_level_2 "How long have you been working in science (in years)?"
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.
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VALUE LABELS
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/sex
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1 "m"
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2 "f"
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3 "d"
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4 "not indicated"
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/data_sharing_1
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1 "No"
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2 "Yes"
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/rdm_stmnt_1
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1 "Strongly disagree"
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2 "Disagree"
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3 "Neither agree nor disagree"
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4 "Agree"
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||||
5 "Strongly agree"
|
||||
/rdm_stmnt_2
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1 "Strongly disagree"
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2 "Disagree"
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||||
3 "Neither agree nor disagree"
|
||||
4 "Agree"
|
||||
5 "Strongly agree"
|
||||
/rdm_stmnt_3
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1 "Strongly disagree"
|
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2 "Disagree"
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3 "Neither agree nor disagree"
|
||||
4 "Agree"
|
||||
5 "Strongly agree"
|
||||
/rdm_stmnt_4
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1 "Strongly disagree"
|
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2 "Disagree"
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||||
3 "Neither agree nor disagree"
|
||||
4 "Agree"
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||||
5 "Strongly agree"
|
||||
/rdm_stmnt_5
|
||||
1 "Strongly disagree"
|
||||
2 "Disagree"
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||||
3 "Neither agree nor disagree"
|
||||
4 "Agree"
|
||||
5 "Strongly agree"
|
||||
/career_level_1
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||||
1 "Student"
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||||
2 "PhD student"
|
||||
3 "Postdoc"
|
||||
4 "Senior researcher"
|
||||
5 "Professor"
|
||||
6 "Other"
|
||||
.
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CACHE.
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EXECUTE.
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|
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ResponseId,age,sex,data_sharing_1,data_sharing_2,rdm_stmnt_1,rdm_stmnt_2,rdm_stmnt_3,rdm_stmnt_4,rdm_stmnt_5,career_level_1,career_level_2
|
||||
Response ID,How old are you? Please enter your age in years.,Please indicate your sex.,Have you ever published data in a repository?,How many of your data sets have you published so far?,Please indicate how much you agree with the following statements - All my analyses are preregistered,Please indicate how much you agree with the following statements - Sharing my data is very important to me,Please indicate how much you agree with the following statements - I invest more time in research data management than my colleagues,Please indicate how much you agree with the following statements - I think research data management is overrated,Please indicate how much you agree with the following statements - Sharing data is bad scientific practice,What is your current career level?,How long have you been working in science (in years)?
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"{""ImportId"":""_recordId""}","{""ImportId"":""QID3_TEXT""}","{""ImportId"":""QID1""}","{""ImportId"":""QID4""}","{""ImportId"":""QID7_TEXT""}","{""ImportId"":""QID2_1""}","{""ImportId"":""QID2_2""}","{""ImportId"":""QID2_3""}","{""ImportId"":""QID2_4""}","{""ImportId"":""QID2_5""}","{""ImportId"":""QID8""}","{""ImportId"":""QID9_TEXT""}"
|
||||
R_8q7OpSkcuPT7SbI,42,f,No,1,Neither agree nor disagree,Agree,Strongly agree,Strongly disagree,Strongly disagree,Other,14
|
||||
R_8Io4pbk0A1a37VL,28,f,Yes,1,Strongly agree,,Neither agree nor disagree,Disagree,Strongly disagree,PhD student,1
|
||||
R_2J9B4aLaasQ1m81,28,f,Yes,1 out of 4,Strongly agree,Strongly agree,Disagree,Disagree,Strongly disagree,PhD student,3
|
||||
R_80kqWr3W48SgiUZ,43,f,Yes,6,Agree,Agree,Neither agree nor disagree,Disagree,Strongly disagree,PhD student,3
|
||||
R_8QpI8T0rjTjaPPr,30,f,Yes,4,Strongly agree,Agree,Neither agree nor disagree,Strongly disagree,Strongly disagree,PhD student,5
|
||||
R_8QoVv6THz1Qjtuz,28,f,Yes,1,Disagree,Disagree,Disagree,Agree,Strongly disagree,Professor,38
|
||||
R_2F9fXxf3NedHqZl,25,d,No,0,Agree,Strongly agree,Disagree,Neither agree nor disagree,Disagree,PhD student,2
|
||||
R_2foYj4iSgaBTkEO,24,f,No,0,Strongly agree,Strongly agree,Neither agree nor disagree,Strongly disagree,Strongly disagree,PhD student,1
|
||||
R_83T6Oak5vI6GNJ7,30,f,Yes,1,Strongly agree,Agree,Neither agree nor disagree,Neither agree nor disagree,Strongly disagree,Postdoc,7
|
||||
R_2Vz26rWsOLYwqnD,25,m,Yes,3,Agree,Agree,Neither agree nor disagree,Disagree,Disagree,PhD student,2
|
||||
R_8HcBgUUm1BXFfhv,29,m,No,0,Strongly agree,Disagree,Disagree,Strongly disagree,Strongly disagree,PhD student,3
|
||||
R_2P1TMDNlwm0gSIk,26,f,No,0,Disagree,Agree,Neither agree nor disagree,Strongly disagree,Strongly disagree,PhD student,1.5
|
||||
R_225ffqhb7qRaIGO,28,f,No,0,Strongly agree,Strongly agree,Neither agree nor disagree,Strongly disagree,Strongly disagree,PhD student,1
|
||||
R_2pXfOSq8DBImG6R,32,f,No,0,Neither agree nor disagree,Agree,Neither agree nor disagree,Strongly disagree,Strongly disagree,PhD student,2
|
||||
|
Binary file not shown.
@@ -0,0 +1,66 @@
|
||||
* Encoding: UTF-8.
|
||||
TITLE "RDM_MS_SS2024".
|
||||
SUBTITLE "".
|
||||
VARIABLE LABELS
|
||||
ResponseId "Response ID"
|
||||
age "How old are you? Please enter your age in years."
|
||||
sex "Please indicate your sex."
|
||||
data_sharing_1 "Have you ever published data in a repository?"
|
||||
data_sharing_2 "How many of your data sets have you published so far?"
|
||||
rdm_stmnt_1 "Please indicate how much you agree with the following statements - All my analyses are preregistered"
|
||||
rdm_stmnt_2 "Please indicate how much you agree with the following statements - Sharing my data is very important to me"
|
||||
rdm_stmnt_3 "Please indicate how much you agree with the following statements - I invest more time in research data management than my colleagues"
|
||||
rdm_stmnt_4 "Please indicate how much you agree with the following statements - I think research data management is overrated"
|
||||
rdm_stmnt_5 "Please indicate how much you agree with the following statements - Sharing data is bad scientific practice"
|
||||
career_level_1 "What is your current career level?"
|
||||
career_level_2 "How long have you been working in science (in years)?"
|
||||
.
|
||||
VALUE LABELS
|
||||
/sex
|
||||
1 "m"
|
||||
2 "f"
|
||||
3 "d"
|
||||
4 "not indicated"
|
||||
/data_sharing_1
|
||||
1 "No"
|
||||
2 "Yes"
|
||||
/rdm_stmnt_1
|
||||
1 "Strongly disagree"
|
||||
2 "Disagree"
|
||||
3 "Neither agree nor disagree"
|
||||
4 "Agree"
|
||||
5 "Strongly agree"
|
||||
/rdm_stmnt_2
|
||||
1 "Strongly disagree"
|
||||
2 "Disagree"
|
||||
3 "Neither agree nor disagree"
|
||||
4 "Agree"
|
||||
5 "Strongly agree"
|
||||
/rdm_stmnt_3
|
||||
1 "Strongly disagree"
|
||||
2 "Disagree"
|
||||
3 "Neither agree nor disagree"
|
||||
4 "Agree"
|
||||
5 "Strongly agree"
|
||||
/rdm_stmnt_4
|
||||
1 "Strongly disagree"
|
||||
2 "Disagree"
|
||||
3 "Neither agree nor disagree"
|
||||
4 "Agree"
|
||||
5 "Strongly agree"
|
||||
/rdm_stmnt_5
|
||||
1 "Strongly disagree"
|
||||
2 "Disagree"
|
||||
3 "Neither agree nor disagree"
|
||||
4 "Agree"
|
||||
5 "Strongly agree"
|
||||
/career_level_1
|
||||
1 "Student"
|
||||
2 "PhD student"
|
||||
3 "Postdoc"
|
||||
4 "Senior researcher"
|
||||
5 "Professor"
|
||||
6 "Other"
|
||||
.
|
||||
CACHE.
|
||||
EXECUTE.
|
||||
Binary file not shown.
@@ -0,0 +1,15 @@
|
||||
ResponseId;age;sex;data_sharing_1;data_sharing_2;rdm_stmnt_1;rdm_stmnt_2;rdm_stmnt_3;rdm_stmnt_4;rdm_stmnt_5;career_level_1;career_level_2
|
||||
R_8q7OpSkcuPT7SbI;42;f;No;2;3;4;5;1;1;Other;14
|
||||
R_8Io4pbk0A1a37VL;28;f;Yes;2;5;NA;3;1;1;PhD student;1
|
||||
R_2J9B4aLaasQ1m81;28;f;Yes;2;5;5;2;1;1;PhD student;3
|
||||
R_80kqWr3W48SgiUZ;43;f;Yes;6;4;4;3;1;1;PhD student;3
|
||||
R_8QpI8T0rjTjaPPr;30;f;Yes;5;5;4;3;1;1;PhD student;5
|
||||
R_8QoVv6THz1Qjtuz;28;f;Yes;2;2;2;2;1;1;Professor;38
|
||||
R_2F9fXxf3NedHqZl;25;d;No;1;4;5;2;2;2;PhD student;2
|
||||
R_2foYj4iSgaBTkEO;24;f;No;1;5;5;3;1;1;PhD student;1
|
||||
R_83T6Oak5vI6GNJ7;30;f;Yes;2;5;4;3;1;1;Postdoc;7
|
||||
R_2Vz26rWsOLYwqnD;25;m;Yes;4;4;4;3;2;2;PhD student;2
|
||||
R_8HcBgUUm1BXFfhv;29;m;No;1;5;2;2;1;1;PhD student;3
|
||||
R_2P1TMDNlwm0gSIk;26;f;No;1;2;4;3;1;1;PhD student;1.5
|
||||
R_225ffqhb7qRaIGO;28;f;No;1;5;5;3;1;1;PhD student;1
|
||||
R_2pXfOSq8DBImG6R;32;f;No;1;3;4;3;1;1;PhD student;2
|
||||
|
Reference in New Issue
Block a user