CJAMP

Description

We provide a computationally efficient and robust implementation of the recently proposed C-JAMP (Copula-based Joint Analysis of Multiple Phenotypes) method (Konigorski et al., 2019, submitted). C-JAMP allows estimating and testing the association of one or multiple predictors on multiple outcomes in a joint model, and is implemented here with a focus on large-scale genome-wide association studies with two phenotypes. The use of copula functions allows modeling a wide range of multivariate dependencies between the phenotypes, and previous results are supporting that C-JAMP can increase the power of association studies to identify associated genetic variants in comparison to existing methods (Konigorski, Yilmaz, Pischon, 2016, <DOI:10.1186/s12919-016-0045-6>; Konigorski, Yilmaz, Bull, 2014, <DOI:10.1186/1753-6561-8-S1-S72>). In addition to the C-JAMP functions, functions are available to generate genetic and phenotypic data, to compute the minor allele frequency (MAF) of genetic markers, and to estimate the phenotypic variance explained by genetic markers.

Downloads

Trend: +23% (30d vs prior 30d)

CRAN Check Status

Maintainer: ‘Stefan Konigorski <stefan.konigorski@gmail.com>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

Maintainer: ‘Stefan Konigorski <stefan.konigorski@gmail.com>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

'LazyData' is specified without a 'data' directory

'LazyData' is specified without a 'data' directory

'LazyData' is specified without a 'data' directory

Error(s) in re-building vignettes:
--- re-building 'cjamp.Rmd' using rmarkdown
! Package pdftex.def Error: File `eb74b7361f9f53907ed4f45abf0a525867a13e88.pdf'
 not found: using draft setting.

Error: processing vignette 'cjamp.Rmd' failed with diagnostics:
LaTeX failed to compile D:/RCompile/CRANpkg/local/4.4/CJAMP.Rcheck/vign_test/CJAMP/vignettes/cjamp.tex. See https://yihui.org/tinytex/r/#debugging for debugging tips. See cjamp.log for more info.
--- failed re-building 'cjamp.Rmd'

SUMMARY: processing the following file failed:
  'cjamp.Rmd'

Error: Vignette re-building failed.
Execution halted

Check History

Maintainer: ‘Stefan Konigorski <stefan.konigorski@gmail.com>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

Maintainer: ‘Stefan Konigorski <stefan.konigorski@gmail.com>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

'LazyData' is specified without a 'data' directory

'LazyData' is specified without a 'data' directory

'LazyData' is specified without a 'data' directory

Maintainer: ‘Stefan Konigorski <stefan.konigorski@gmail.com>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

Maintainer: ‘Stefan Konigorski <stefan.konigorski@gmail.com>’

Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

'LazyData' is specified without a 'data' directory

'LazyData' is specified without a 'data' directory

'LazyData' is specified without a 'data' directory

Dependency Network

Version History