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Censored Data Analysis (Exercise class)


SIS page : NMST531

Schedule : on Monday 12:20 - 13:50 in classroom K4

Language : materials in English, instructed in Czech (unless anybody requires English)

Instructor e-mail : vavraj@karlin.mff.cuni.cz (for sending solutions to assignments)

Lecture web page (from previous year): www.karlin.mff.cuni.cz/~kulich/vyuka/cens/index.html

Note : exercises will start by the end of October

CORONAVIRUS : We have to be ready for any potential government restrictions.


Credit

Overview

Exercise 1 (7-14th November)

Exercise 2 (14-21st November)

Exercise 3 (21-28th November)

Exercise 4 (28th November - 5th December)

Exercise 5 (5-13th December)

  • Topic: Testing equality of censored distributions
  • Datasets: km_all.RData
  • 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 13th December 9:00 (also for Ex 6!)

Exercise 6 (5-13th December)

  • HELD TOGETHER WITH Ex5 on 5th December at 12:20!
  • Topic: The choice of two-sample test statistic
  • Datasets: data(veteran), nurshome
  • Assignment: Fill table of appropriateness of different weights in two-sample survival tests in different situations. Perform several real data analyses and simulation study.
  • Deadline: Tuesday 13th December 9:00 (also for Ex 5!)

Exercise 7 (13th December - 2nd January)

  • Held on Tuesday 13th December at 14:00!!! On Monday 12th December there will be a lecture on Cox model by doc. Hlubinka.
  • 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: Monday 2nd January 9:00

Bonus Exercise (not scheduled)

  • Topic: Generalizations of the Cox model
  • Dataset: pbc and cgd datasets from library(survival)
  • Assignment: None, just admire what else could be done with the Cox model.

Exercise 8 (2-9th January)

  • Topic: Time-varying covariates in the Cox model
  • Dataset: jasa and heart dataset from library(survival)
  • Assignment: Try to reproduce heart dataset from jasa. 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: Monday 16th January 9:00