Efficient Mixed Model Analysis of Count Data in Large-Scale Genomic Sequencing Studies

An efficient tool designed for differential analysis of large-scale RNA sequencing (RNAseq) data and Bisulfite sequencing (BSseq) data in the presence of individual relatedness and population structure. 'PQLseq' first fits a Generalized Linear Mixed Model (GLMM) with adjusted covariates, predictor of interest and random effects to account for population structure and individual relatedness, and then performs Wald tests for each gene in RNAseq or site in BSseq.


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install.packages("PQLseq")

1.1 by Shiquan Sun, 10 months ago


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


Authors: Shiquan Sun , Jiaqiang Zhu , Xiang Zhou


Documentation:   PDF Manual  


GPL (>= 2) license


Imports Rcpp, foreach, doParallel, parallel, Matrix

Linking to Rcpp, RcppArmadillo


See at CRAN