surv.dist: Distance of a Survival Endpoint
In xueyuancao/GSDA: Gene Set Distance Analysis (GSDA)
Description
Usage
Arguments
Details
Value
Author(s)
References
See Also
Examples
Description
A function to calculate the distance for a survivial endpoint.
Usage
1
surv.dist(stime.evnt)
Arguments
stime.evnt
A data frame with time in first column and censor in second column.
Details
This function calculates the distance matrix for a censored event-time variable. The calculation is based on the formula in Section 2.4 of Cao and Pounds (2021). The distance metric for censored event-time data is based on the rank-based association statistic for this type of data proposed by Jung et al (2005).
Value
A square matrix with nrow and ncol equal to the nrow of stime.evnt. Entry (i,j) of the result matrix gives the survival distance between subjects represented in rows i and j of stime.evnt.
Author(s)
Xueyuan Cao xcao12@uthsc.edu and Stanley Pounds stanley.pounds@stjude.org
References
Cao X and Pounds S (2021) Gene-Set Distance Associations (GSDA): A Powerful Tool for Gene-Set Association Analysis.
Jung SH, Owzar K, and George SL (2005) A mutiple testing procedure to associate gene expression levels with survival. Statistics in Medicine 24: 3077-88.
See Also
Examples
1
2
data(target.aml.clin)
srv.dist=surv.dist(target.aml.clin[,c("efs.time","efs.evnt")])
xueyuancao/GSDA documentation built on Jan. 21, 2021, 8:23 p.m.
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Description Usage Arguments Details Value Author(s) References See Also Examples
Description
A function to calculate the distance for a survivial endpoint.
Usage
1 | surv.dist(stime.evnt)
|
Arguments
stime.evnt |
A data frame with time in first column and censor in second column. |
Details
This function calculates the distance matrix for a censored event-time variable. The calculation is based on the formula in Section 2.4 of Cao and Pounds (2021). The distance metric for censored event-time data is based on the rank-based association statistic for this type of data proposed by Jung et al (2005).
Value
A square matrix with nrow and ncol equal to the nrow of stime.evnt. Entry (i,j) of the result matrix gives the survival distance between subjects represented in rows i and j of stime.evnt.
Author(s)
Xueyuan Cao xcao12@uthsc.edu and Stanley Pounds stanley.pounds@stjude.org
References
Cao X and Pounds S (2021) Gene-Set Distance Associations (GSDA): A Powerful Tool for Gene-Set Association Analysis.
Jung SH, Owzar K, and George SL (2005) A mutiple testing procedure to associate gene expression levels with survival. Statistics in Medicine 24: 3077-88.
See Also
Examples
1 2 | data(target.aml.clin)
srv.dist=surv.dist(target.aml.clin[,c("efs.time","efs.evnt")])
|
R Package Documentation
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We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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