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Discovering the causes of cancer and the means of prevention

Nested Cohort

NestedCohort is an R software package for fitting Kaplan-Meier and Cox Models to estimate standardized survival and attributable risks for studies where covariates of interest are observed on only a sample of the cohort. Standard designs that can be handled by this software include the case-cohort and case-control studies conducted within defined cohorts. At this time, the software does not yet support nested case-control designs.

This software requires you to have R 2.15.2 or higher installed on your computer. R is freely-available statistical software that is very similar to S-PLUS. To install R on your computer, visit the R homepage. In the manual included with NestedCohort, I show how to import SAS data into R for NestedCohort to analyze.

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Suggested reference for the NestedCohort program:

Studies that have utilized this software:

  • Abnet, C. C., Lai, B., Qiao, Y.-L., Vogt, S., Luo, X.-M., Taylor, P. R., Dong, Z.-W., Mark, S. D., and Dawsey, S. M. (2005). Zinc concentration in esophageal biopsies measured by x-ray fluorescence and cancer risk.
    Journal of the National Cancer Institute, 97(4):301-306.
  • Kamangar F, Qiao YL, Blaser MJ, Katki H, Perez-Perez GI, Abnet CC, Dong ZW, Mark SD, Taylor PR, Dawsey SM. Helicobacter pylori and oesophageal and gastric cancers in a prospective study in China.
    British Journal of Cancer. 96(1):172-6, 2007


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