gClinBiomarker is an R package that contains functions to perform baseline and longitutinal biomarker analyses

Two documents are provided: - A user vignette demonstrates how gClinBiomarker package may help in your biomarker analysis - An exapmle use case document which contains more detailed use cases

pdf version of these two documents can be found at inst/doc: https://github.com/lengning/gClinBiomarker/tree/master/inst/doc

The Rmarkdown templates to run the automatic workflows can be found here: https://github.com/lengning/gClinBiomarker-templates

To install this package from R, use `install_github()`

function from the **devtools** package

In R, type:

```
## install.packages("devtools")
library(devtools)
install_github("lengning/gClinBiomarker")
```

Use the command `vignette(package = 'gClinBiomarker')`

to view a list of avaialble vignettes for the `gClinBiomarker`

package. Then use the command `vignette(<vignett_name>)`

to view the relevant documentation.

- Time-to-event
- Binary
- Continuous
- Longitudinal

- Continuous
- Ordinal
- Categorical
- Longitudinal

- 2-arm study: predictive and prognostic biomarker analysis
- 1-arm study: prognostic biomarker analysis

Is your biomarker population your full patient population? Take a look at these functions:

`SummaryVars()`

, `CompareKM()`

, `PlotRspBar()`

Is your biomarker response a dynamic range? Does it have a skewed distribution? Is it correlated with clinical variables?

`PlotProperty()`

, `PlotTabForestMulti()`

Is your biomarker response associated with a clinical outcome? Is it prognostic or predictive? Is there an optimal biomarker cutoff with a consistent trend?

`PlotTabForestBiomarker()`

, `PlotSTEPP()`

Estimate the clinical benefit within a biomarker subgroup.

`PlotKM()`

, `PlotLong()`

, `PlotRspBar()`

, `CoxTab()`

, `LogRankTab()`

lengning/gClinBiomarker documentation built on May 9, 2019, 2:55 p.m.

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