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trio package contains the following functions: 1. The identification of linkage disequilibrium (LD) blocks, 2. Computation of pair-wise LD values. 3. Genotype imputation, 4. Simulation of case-parent trios with disease risk vs. SNP interaction, 5. Computation of trio logic regression on matched case pseudo-control genotype data for case-parent trios, 6. Calculation of power and sample size.


Genetic variation; Population genetics; Genotyping experiment


  • Operation: Linkage analysis; Imputation
  • Software interface: Command-line user interface; Library
  • Language: R
  • Operating system: Linux; Mac OS X; Microsoft Windows
  • License: GNU Lesser General Public License v2
  • Cost: Free
  • Version name: 3.22.0
  • Credit: -
  • Contact: holger.schw _at_
  • Collection: BioConductor


Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J1, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M "Orchestrating high-throughput genomic analysis with Bioconductor." Nat Methods. 2015 Feb;12(2):115-21.
PMID: 25633503
PMCID: PMC4509590

Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JY, Zhang J. "Bioconductor: open software development for computational biology and bioinformatics." Genome Biol. 2004;5(10):R80. Epub 2004 Sep 15.
PMID: 15461798
PMCID: PMC545600

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