• Haploview

  • Referenced in 22 articles [sw11870]
  • software package that provides computation of linkage disequilibrium statistics and population haplotype patterns from primary...
  • GCTA

  • Referenced in 16 articles [sw23135]
  • SNPs, estimation of the linkage disequilibrium structure, and GWAS simulation. We focus on the function...
  • GOLD

  • Referenced in 4 articles [sw35911]
  • GOLD - Graphical Overview of Linkage Disequilibrium. A software package that provides a graphical summary ... linkage disequilibrium in human genetic data. The graphical summary is well suited to the analysis...
  • SimPed

  • Referenced in 3 articles [sw15080]
  • analyzing pedigree haplotype data. Intermarker linkage disequilibrium for microsatellite markers is usually ... markers, there can be strong linkage disequilibrium between marker loci. Linkage analysis (parametric and nonparametric ... complexity. Marker data either in linkage disequilibrium or equilibrium can be generated for greater than ... type I error due to intermarker linkage disequilibrium and estimating empirical p values for linkage...
  • HAPGEN2

  • Referenced in 6 articles [sw17354]
  • produce samples with patterns of linkage disequilibrium (LD), which mimic those in real data. However...
  • TASSEL

  • Referenced in 5 articles [sw11446]
  • result interpretation, the program allows for linkage disequilibrium statistics to be calculated and visualized graphically...
  • HapBlock

  • Referenced in 5 articles [sw26434]
  • algorithms. Recent studies have revealed that linkage disequilibrium (LD) patterns vary across the human genome...
  • genetics

  • Referenced in 4 articles [sw24196]
  • Weinberg disequilibrium, estimating and testing for linkage disequilibrium...
  • GENEHUNTER

  • Referenced in 4 articles [sw18773]
  • significance levels in the presence of linkage disequilibrium among marker loci...
  • SIMLA

  • Referenced in 4 articles [sw00862]
  • levels of both linkage (recombination) and linkage disequilibrium (LD) between marker and disease loci ... flexibility in choosing many parameters relevant for linkage and association mapping of complex human diseases...
  • HapSim

  • Referenced in 4 articles [sw35553]
  • such that their allele frequencies and linkage disequilibrium coefficients match exactly those estimated...
  • BALD

  • Referenced in 2 articles [sw20895]
  • BALD software. Title: Blockwise Approach using Linkage Disequilibrium information. Functions for the Genome-Wide Association ... SNPs data, constrained hierarchical clustering using Linkage Disequilibrium (LD) measures, the Gap statistic to find...
  • HaploBlockFinder

  • Referenced in 2 articles [sw30041]
  • unveiled discrete block-like structures of linkage disequilibrium (LD) in the human genome. We have ... haplotype block structure and pattern of linkage disequilibrium. Availability: A web interface for the HaploBlockFinder...
  • SNPStats

  • Referenced in 3 articles [sw20043]
  • test for Hardy-Weinberg equilibrium and linkage disequilibrium. Analysis of association is based on linear...
  • SNPinfo

  • Referenced in 3 articles [sw17360]
  • select SNPs based on GWAS results, linkage disequilibrium (LD), and predicted functional characteristics of both...
  • ohtadstats

  • Referenced in 1 article [sw28355]
  • Framework for the Partitioning of Linkage Disequilibrium between and Within Populations. Patterns of linkage disequilibrium ... been derived which compare levels of linkage disequilibrium in subpopulations relative to the total population...
  • powerpkg

  • Referenced in 2 articles [sw25736]
  • estimate the power of testing for linkage using an affected sib pair design ... examine how the power of the transmission disequilibrium test (TDT) depends on the disease allele ... allele frequency, the strength of the linkage disequilibrium, and the magnitude of the genetic effect...
  • LDheatmap

  • Referenced in 2 articles [sw30542]
  • heat map, of pairwise linkage disequilibrium measurements between single nucleotide polymorphisms within a genomic region...
  • snp.plotter

  • Referenced in 2 articles [sw30540]
  • package include options to display a linkage disequilibrium (LD) plot and the ability to plot...
  • DnaSP

  • Referenced in 2 articles [sw19960]
  • codon positions), as well as linkage disequilibrium, recombination, gene flow and gene conversion parameters. DnaSP...