Generalized CDH (GCDH) Analysis

Implements a generalized version of the CDH test ( and ) for detecting compound heterozygosity on a genome-wide level, due to usage of generalized linear models it allows flexible analysis of binary and continuous traits with covariates.


Added snpPos function for retrieving SNP positions from UCSU database. Added pooling functionality to getHaplos for better accuracy.

Reference manual

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0.10.11 by Kaiyin Zhong, 2 years ago

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Authors: Kaiyin Zhong , Fan Liu

Documentation:   PDF Manual  

GPL-3 license

Imports R.utils, RSQLite, biganalytics, bigmemory, collUtils, dplyr, ggplot2, methods, stringr, stats, haplo.stats

Depends on rJava

Suggests testthat

System requirements: PLINK2, Java (>= 8.0), mysql

See at CRAN