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.


News

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

Reference manual

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install.packages("CollapsABEL")

0.10.11 by Kaiyin Zhong, a year ago


https://bitbucket.org/kindlychung/collapsabel2/overview


Report a bug at https://bitbucket.org/kindlychung/collapsabel2/issues


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


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