Package: PQLseq 1.2.1

Jiaqiang Zhu

PQLseq: 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.

Authors:Shiquan Sun, Jiaqiang Zhu, Xiang Zhou

PQLseq_1.2.1.tar.gz
PQLseq_1.2.1.tar.gz(r-4.5-noble)PQLseq_1.2.1.tar.gz(r-4.4-noble)
PQLseq_1.2.1.tgz(r-4.4-emscripten)PQLseq_1.2.1.tgz(r-4.3-emscripten)
PQLseq.pdf |PQLseq.html
PQLseq/json (API)

# Install 'PQLseq' in R:
install.packages('PQLseq', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Uses libs:
  • openblas– Optimized BLAS
  • c++– GNU Standard C++ Library v3
  • openmp– GCC OpenMP (GOMP) support library
Datasets:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

openblascppopenmp

1.60 score 5 scripts 177 downloads 4 mentions 1 exports 8 dependencies

Last updated 4 years agofrom:0463c810bc. Checks:OK: 1 NOTE: 1. Indexed: yes.

TargetResultDate
Doc / VignettesOKDec 15 2024
R-4.5-linux-x86_64NOTEDec 15 2024

Exports:pqlseq

Dependencies:codetoolsdoParallelforeachiteratorslatticeMatrixRcppRcppArmadillo