Censored Data Analysis - Exercise class

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• SIS page: NMST531
• Schedule: Monday 12:20 - 13:50 in classroom K11
• Language: materials in English, instructed in Czech (unless anybody requires English)
• Instructur e-mail: vavraj@karlin.mff.cuni.cz
• Lecture web page: http://www.karlin.mff.cuni.cz/~kulich/vyuka/cens/index.html
• Note: exercises will start on 4th November (untill then, lectures will replace exercise classes

Credit

• Presence at exercises (2 absences tolerated).
• Satisfactory solution to given assignments by the prescribed deadline.
  (If your solution will not be satisfactory enough, you might be asked for revision.)

Overview

Exercise 1 (4th November)

• Topic: Parametric regression models for censored data
• Dataset: pbc dataset from library(survival)
• Assignment: Find suitable model for survival time and interpret it.
• Deadline: 11th November

Exercise 2 (11th November)

• Topic: Non-parametric estimation of cumulative hazard and survival function
• Dataset: fans
• Assignment: Calculate and plot [NA], [KM], [FH] estimates both manually and using survfit function from library(survival).
• Deadline: 18th November

Exercise 3 (18th November)

• Topic: Actuarial (lifetable) estimator of the survival
• Dataset: mort.m and mort.f from mort.RData
• Assignment: Compare classical [KM] estimator with Actuarial (Lifetable) estimator and with the output from ČSÚ: males and females.
• Deadline: 25th November

Exercise 4 (25th November)

• Topic: Confidence intervals and bands for survival function
• Dataset: km_all.RData
• Assignment: Compute and plot [KM] estimates including Hall-Werner bands. Perform short (or long if you wish) simulation study.
• Deadline: 2nd December

Exercise 5 (2nd December)

• Topic: Testing equality of censored distributions
• Datasets: km_all.RData, data(veteran),
• Assignment: Calculate and plot [KM], [NA] estimates and smoothed estimator of hazard function when differentiating different groups. Perform two-sample tests and decide (based on the plots) which test statistic would be the most appropriate.
• Deadline: Tuesday 17th December (you have two weeks)

Exercise 6 (9th December)

• Topic: The choice of two-sample test statistic
• Assignment: Finish the assignment from previous exercise.
• Deadline: Tuesday 17th December

Exercise 7 (Tuesday 17th December)

• Topic: Building Cox models for censored data (constant covariates)
• Dataset: pbc dataset from library(survival)
• Assignment: Perform exploratory analysis focused on the influence of covariates on the survival probability. Build a reasonable Cox model (starting from simple univariate models). Compare your final Cox model to your final model from Exercise 1.
• Deadline: 6th January

Exercise 8 (6th January)

• Topic: Time-varying covariates in the Cox model
• Dataset: jasa and heart dataset from library(survival)
• Assignment: Build and interpret Cox model with covariate indicating the time of heart transplantation and other fixed covariates. Does transplantation help patients to survive longer? Plot estimated survival functions.
• Deadline: the sooner you deliver it, the sooner you get course credit.