Pathway and Gene-Level Association Test

Pathway and gene level association test using raw data or summary statistics.


CRAN version CRAN RStudio mirror downloads

This R package is used for biological pathway analysis and pathway meta-analysis for genome-wide association studies. This is an enhanced version of ARTP on CRAN. An online application of ARTP2 is hosted at https://analysistools.nci.nih.gov/pathway/, where data from the 1000 Genomes Project is provided as genotype reference panel.

News

v0.9.44 (2018-09-11)

  • New options added to generalize a pathway definition. New maintainer for the package.

v0.9.36 (2017-05-25)

  • Since v0.9.26, fix some minor bugs, make some major updates to improve performance, revise help documents, support new R and C++ standards, etc.

v0.9.25 (2016-03-01)

  • Fix a bug in rARTP when none of the SNPs in a gene can pass the data cleaning threshold specified in options. This bug only affects rARTP. Add a new function exclude.snps

v0.9.22 (2016-02-11)

  • Rename the main functions to be rARTP (raw data input), sARTP (summary data input), and warm.start so that it is consistent with our journal paper

v0.9.21 (2016-02-11)

  • First stable submission to CRAN

Reference manual

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install.packages("ARTP2")

0.9.45 by Bill Wheeler, 9 days ago


https://github.com/zhangh12/ARTP2


Report a bug at https://github.com/zhangh12/ARTP2/issues


Browse source code at https://github.com/cran/ARTP2


Authors: Han Zhang , Bill Wheeler , Kai Yu , Yifan Yang , R Core Team


Documentation:   PDF Manual  


GPL-2 | GPL-3 license


Imports Formula, parallel, data.table

Depends on stats, utils

Enhances ARTP

System requirements: C++11


See at CRAN