gap - Genetic Analysis Package

As first reported [Zhao, J. H. 2007. "gap: Genetic Analysis Package". J Stat Soft 23(8):1-18. <doi:10.18637/jss.v023.i08>], it is designed as an integrated package for genetic data analysis of both population and family data. Currently, it contains functions for sample size calculations of both population-based and family-based designs, probability of familial disease aggregation, kinship calculation, statistics in linkage analysis, and association analysis involving genetic markers including haplotype analysis with or without environmental covariates. Over years, the package has been developed in-between many projects hence also in line with the name (gap).

Last updated 21 days ago

geneticsimputationlmm

11.80 score 12 stars 14 packages 462 scripts 13k downloads

tdthap - TDT Tests for Extended Haplotypes

Functions and examples are provided for Transmission/disequilibrium tests for extended marker haplotypes, as in Clayton, D. and Jones, H. (1999) "Transmission/disequilibrium tests for extended marker haplotypes". Amer. J. Hum. Genet., 65:1161-1169, <doi:10.1086/302566>.

Last updated 21 days ago

geneticsimputationlmm

5.92 score 12 stars 6 scripts 327 downloads

pan - Multiple Imputation for Multivariate Panel or Clustered Data

It provides functions and examples for maximum likelihood estimation for generalized linear mixed models and Gibbs sampler for multivariate linear mixed models with incomplete data, as described in Schafer JL (1997) "Imputation of missing covariates under a multivariate linear mixed model". Technical report 97-04, Dept. of Statistics, The Pennsylvania State University.

Last updated 1 years ago

7.79 score 1 stars 143 packages 63 scripts 45k downloads