trigger: Transcriptional Regulatory Inference from Genetics of Gene ExpRession

This R package provides tools for the statistical analysis of integrative genomic data that involve some combination of: genotypes, high-dimensional intermediate traits (e.g., gene expression, protein abundance), and higher-order traits (phenotypes). The package includes functions to: (1) construct global linkage maps between genetic markers and gene expression; (2) analyze multiple-locus linkage (epistasis) for gene expression; (3) quantify the proportion of genome-wide variation explained by each locus and identify eQTL hotspots; (4) estimate pair-wise causal gene regulatory probabilities and construct gene regulatory networks; and (5) identify causal genes for a quantitative trait of interest.

AuthorLin S. Chen <lchen@health.bsd.uchicago.edu>, Dipen P. Sangurdekar <dps@genomics.princeton.edu> and John D. Storey <jstorey@princeton.edu>
Date of publicationNone
MaintainerJohn D. Storey <jstorey@princeton.edu>
LicenseGPL-3
Version1.20.0

View on Bioconductor

Files

trigger/DESCRIPTION
trigger/NAMESPACE
trigger/R
trigger/R/AllClasses.R trigger/R/AllGenerics.R trigger/R/allFunctions.R
trigger/build
trigger/build/vignette.rds
trigger/data
trigger/data/datalist
trigger/data/yeast.rda
trigger/inst
trigger/inst/NEWS
trigger/inst/doc
trigger/inst/doc/trigger.R
trigger/inst/doc/trigger.Rnw
trigger/inst/doc/trigger.pdf
trigger/man
trigger/man/plot.Rd trigger/man/trigger-build.Rd trigger/man/trigger-class.Rd trigger/man/trigger-eigenR2.Rd trigger/man/trigger-export2cross.Rd trigger/man/trigger-link.Rd trigger/man/trigger-loclink.Rd trigger/man/trigger-mlink.Rd trigger/man/trigger-net.Rd trigger/man/trigger-netPlot2ps.Rd trigger/man/trigger-trait.Rd trigger/man/yeast.Rd
trigger/src
trigger/src/trigger.c
trigger/vignettes
trigger/vignettes/net50.pdf
trigger/vignettes/trigger.Rnw
trigger/vignettes/trigger.bib

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