Survival Analysis: Kaplan-Meier and Cox Regression

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Questions and Answers

What is the primary function of the aes function in ggplot?

  • To map variables to aesthetics (correct)
  • To specify the data frame
  • To create a bar chart
  • To calculate summary statistics

What does the after_stat function do in ggplot?

  • It calculates the mean of the data
  • It creates a new aesthetic mapping
  • It removes missing values from the data
  • It computes a statistic after the data has been processed (correct)

What is the purpose of the theme_bw function in ggplot?

  • To add a title to the plot
  • To change the color scheme of the plot
  • To modify the axis labels
  • To create a black and white theme for the plot (correct)

What is the result of the code count(continent) %>% mutate(perc = n/sum(n) * 100)?

<p>A table with the count and proportion of each continent (C)</p> Signup and view all the answers

What does the scale_colour_grey function do in ggplot?

<p>It changes the color scheme of the plot to grey (D)</p> Signup and view all the answers

What is the purpose of the group = 1 argument in the geom_bar function?

<p>To ensure that the bars are not stacked (A)</p> Signup and view all the answers

What is the result of the code gapminder2 %&gt;% count(continent)?

<p>A table with the count of each continent (A)</p> Signup and view all the answers

What is the purpose of the mutate function in the code gapminder2 %&gt;% count(continent) %&gt;% mutate(perc = n/sum(n) * 100)?

<p>To create a new column with the proportion of each continent (B)</p> Signup and view all the answers

What is the purpose of removing observations with missing values for the variable cat_fbs?

<p>To ensure that the data is complete (B)</p> Signup and view all the answers

What is the result of the code count(cat_fbs)?

<p>A table with the count of each category of <code>cat_fbs</code> (B)</p> Signup and view all the answers

Flashcards

aes function in ggplot

Maps variables to aesthetics (visual properties) in a ggplot2 plot.

after_stat function

Calculates statistics after ggplot2 has processed the data.

theme_bw function

Creates a black and white theme for ggplot2 plots.

count(continent) %>% mutate(perc = ...)

Calculates the count and percentage of each continent.

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scale_colour_grey function

Changes the color scheme of a ggplot2 plot to grayscale.

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group = 1 in geom_bar

Ensures bars are not stacked in a bar chart.

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gapminder2 %>% count(continent)

Counts the occurrences of each continent in the gapminder2 dataset.

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mutate function purpose

Creates a new column or modifies existing columns in a data frame.

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removing missing values (cat_fbs)

Handles missing data for the 'cat_fbs' variable in a dataset.

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count(cat_fbs)

Counts the occurrences of each category in the 'cat_fbs' variable.

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Study Notes

Survival Analysis

  • Survival analysis is also known as duration analysis or time-to-event analysis.
  • It's useful in follow-up studies where participants or patients are followed up until they develop the event of interest.
  • Examples of such studies include retrospective cohort or prospective cohort studies.
  • Survival analysis can be applied to any study that involves both the duration of follow-up and the event of interest.

Types of Survival Analysis

  • There are three main types of survival analysis:
    • Non-parametric survival analysis (e.g. Kaplan-Meier estimates)
    • Semi-parametric survival analysis (e.g. Cox proportional hazards regression)
    • Parametric survival analysis (e.g. Weibull parametric survival analysis)

Kaplan-Meier Estimates

  • Kaplan-Meier estimates are used in non-parametric survival analysis.
  • They are often performed at the beginning of an analysis to understand the trend of survival probabilities.

Cox Proportional Hazards (PH) Regression

  • Cox PH regression is a type of semi-parametric survival analysis.
  • It can be used for simple (univariable) or multiple (multivariable) regression analysis.

R Studio Project

  • It is recommended to start a new analysis project by creating a new RStudio project.

Data Visualization

  • ggplot can be used to create plots, such as bar charts and histograms.
  • The y-axis can be adjusted to show proportions by using the after_stat function.

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