Famrvtest
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Revision as of 17:06, 2 September 2013 by Shuang Feng (talk | contribs)
Brief Description
famRvTest is a computationally efficient tool for family-based association analyses of rare variants using sequencing or genotyping array data. famRvTest supports both single variant and gene-level associations.
Download and Installation
- University of Michigan CSG users can go to the following:
/net/fantasia/home/sfengsph/code/famRV/bin/famRvTesst
Where to Download
- The software package for Linux and Mac (source code included) can be downloaded here: software package download
How to Compile
- Save it to your local path and decompress using the following command:
tar xvzf FamRV.0.0.1.tgz
- Go to FamRV_0.0.1/famRvTest/src and type the following command to compile:
make
How to Execute
- Go to FamRV_0.0.1/famRvTest/bin and use the following:
./famRvTest
Approach
famRvTest uses linear mixed model approach to account for familial relationship, where kinship is either quantified based upon pedigree structures or estimated from genotypes of markers from genome-wide. Single marker associations including score, likelihood ratio and ward tests and gene-level associations methods (weighted and un-weighted burden, SKAT and variable threshold) have been implemented. Manuscript is under preparation.
