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WHAT'S NEW in
linkage analysis software list
(2008)

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• 12/27/2008
  SUMSTAT

• 11/17/2008
  GERMLINE

• 11/10/2008
  LDA

• 11/03/2008
  NUCULAR : splitting extended pedigrees to nuclear families
  SIMM : a gene dropping program
  GENEHUNTER++SAD : more robust to transmission ratio distortion in the context of allele sharing

• 09/15/2008
  APL-OSA : association in the presence of linkage with ordered subset analysis
  SIMULA :
  SIMULAPLOT :

• 09/05/2008
  SNAP(3) : Simulation of SNP haplotype data and phenotypic traits
  SNP.PLOTTER : creates publishable-quality plots of LD p-values
  MOCSPHASER: inferring haplotypes with both CNV alleles and SNP alleles

• 09/04/2008
  PEDPEEL

• 08/06/2008
  SNAP (2) : SNP Annotation and Proxy search
  SWEEP : using long-range haplotype to detect natural selection

• 07/31/2008
  HIT : haplotype inference technique
  HAPLOVISUAL
  PSAT : population stratification association test
  GEVALT : genotype visualization and algorithmic tool

• 07/30/2008
  BIMBAM : Bayesian IMputation-Based Association Mapping
  EDCA : power calculator for extremely discordant and concordant sibpairs
  GHOST : family-based genomewide association analysis with large pedigrees
  IMPUTE : WTCCC's imputing genotype program, work with CHIAMO and HAPGEN
  CHIAMO : genotype calling program for Affymetrix 500K chips
  SNPTEST : work with CHIAMO, IMPUTE and GTOOL
  GTOOL : work with SNPTEST and IMPUTE
  MACH : Markov Chain haplotyper
  P_ACT : R program for adjusting p-values in correlated tests

• 06/17/2008
  QTL-ALL : QTL Analysis and Linkage Library

• 06/11/2008
  RECORD : REcombination Counting and ORDering
  SMOOTH :

• 06/04/2008
  TUNA : testing untyped alleles

• 06/03/2008
  GENIE : merged from PEDGENIE and HAPMC

• 05/21/2008
  ANCESTRYMAP :

• 04/21/2008
  MPDA : microarray pooled DNA analyzer

• 03/24/2008
  PIAGE : power of indirect association studies of gene-environment interactions

• 03/05/2008
  MUTAGENESYS :
  QTLNETWORK : mapping and visualizing genetic network of QTs
  JENTI : mining complex genealogies

• 02/19/2008
  HAPLOBUILD :

• 02/11/2008
  MULTIMAPPER :
  MULTIMAPPER/OUTBRED :
  J/QTL : Java GUI for R/QTL
  PSEUDOMAKER.M : MATLAB code for QTL analysis of inbred line crosses.
  QGENE : QTL mapping
  MATLINK : MATLAB code for genetic linkage in exotic line-cross mating designs
  PLABQTL : plant breeding QTL analysis

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