rvsel 0.1 – Rare Variants Selection with Sequence Data

rvsel 0.1

:: DESCRIPTION

rvsel is an R package for rare variants selection with sequence data. The most outome-related rare variants are selected within a gene or a genetic region. The selection procedure is based on the power set of the subset of the rare variants.

::DEVELOPER

Wang Lab @ Biostatistics Department

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux
R

:: DOWNLOAD

rvsel

:: MORE INFORMATION

Citation

Bioinformatics. 2014 Apr 22. pii: btu207.
A power set-based statistical selection procedure to locate susceptible rare variants associated with complex traits with sequencing data.
Sun H, Wang S.

gTDT 0.01 – A group-wise TDT for Haplotype-based Association Testing of Rare Variants with complex Disease

gTDT 0.01

:: DESCRIPTION

gTDT implemented gene-based or group-wise TDT for rare variant aggregation analysis. Currently gTDT implemented haplotype-based tests for 6 models, M1-M6. It takes as input a ped file and a dat file that specify the relationships, and a VCF file that stores genotype data.

::DEVELOPER

gTDT team

:: SCREENSHOTS

N/A

::REQUIREMENTS

Linux

:: DOWNLOAD

gTDT

:: MORE INFORMATION

Citation

A haplotype-based framework for group-wise transmission/disequilibrium tests for rare variant association analysis.
Chen R, Wei Q, Zhan X, Zhong X, Sutcliffe J, Cox N, Cook EH, Li C, Chen W, Li B.
Bioinformatics. 2015 Jan 6. pii: btu860.