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http://www.geneticepi.com/Research/software/software.html
THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 16,2023. Software application (entry from Genetic Analysis Software).
Proper citation: MILD (RRID:SCR_003335) Copy
http://linkage.rockefeller.edu/pawe3d/
Software application (entry from Genetic Analysis Software)
Proper citation: PAWE-3D (RRID:SCR_003326) Copy
http://bioinf.wehi.edu.au/folders/melanie/haploclusters.html
Software program designed to detect excess haplotypes sharing in datasets consisting of case and control haplotypes. Excess haplotype sharing can be seen around disease loci in case samples since LD persists longer here than in the controls where LD is persisting only according to the relatedness of the individuals in the population, i.e. the age of the population. (entry from Genetic Analysis Software)
Proper citation: HAPLOCLUSTERS (RRID:SCR_007439) Copy
http://gaow.github.io/genetic-analysis-software/l-1.html#ldsupport
Software application (entry from Genetic Analysis Software)
Proper citation: LDSUPPORT (RRID:SCR_007036) Copy
http://cedar.genetics.soton.ac.uk/pub/PROGRAMS/BETA
Software application for non-parametric linkage analysis using allele sharing in sib pairs (entry from Genetic Analysis Software)
Proper citation: BETA (RRID:SCR_007556) Copy
http://www.wesbarris.com/mapcreator/
Software application to create gene maps using either radiation hybrid data or linkage data (entry from Genetic Analysis Software)
Proper citation: MAPCREATOR (RRID:SCR_008001) Copy
http://www.sph.umich.edu/csg/abecasis/GOLD/
Software package that provides a graphical summary of linkage disequilibrium in human genetic data. The graphical summary is well suited to the analysis of dense genetic maps, where contingency tables are cumbersome to interpret. An interface to the Simwalk2 application allows for the analysis of family data.
Proper citation: Graphical Overview of Linkage Disequilibrium (RRID:SCR_007151) Copy
http://www.mds.qmw.ac.uk/statgen/dcurtis/software.html
THIS RESOURCE IS NO LONGER IN SERVICE. Documetned on May 12,2023. Software application (entry from Genetic Analysis Software)
Proper citation: FASTMAP (2) (RRID:SCR_008635) Copy
http://bios.ugr.es/BMapBuilder/
Software application (entry from Genetic Analysis Software)
Proper citation: BMAPBUILDER (RRID:SCR_007264) Copy
https://github.com/gaow/genetic-analysis-software/blob/master/pages/KIN.md
THIS RESOURCE IS NO LONGER IN SERVICE, documented September 29, 2016. Software application to calculate kinship coefficient or coefficient of coancestry (the probability that alleles at a given locus are identical by descent).
Proper citation: KIN (RRID:SCR_009047) Copy
http://chgr.mc.vanderbilt.edu/genomeSIMLA/
Software application that is a forward-time population simulation method that can simulate realistic patterns of LD in both family-based and case-control datasets. (entry from Genetic Analysis Software)
Proper citation: GENOMESIMLA (RRID:SCR_008990) Copy
https://cran.r-project.org/web/packages/stepwise/index.html
Software application that is a stepwise approach to identifying recombination breakpoints in a sequence alignment (entry from Genetic Analysis Software)
Proper citation: R/STEPWISE (RRID:SCR_007420) Copy
Software application that is a graphic way of organizing the mass of information gathered during a family assessment and finding patterns in the family system (entry from Genetic Analysis Software)
Proper citation: GENOGRAM-MAKER (RRID:SCR_008751) Copy
Software application to reduce family members so the families can be used in GENEHUNTER program. FASTER eliminates the most redundant individuals according to the set of weights (preferences) (Age, Information about genetic Markers, etc.) The program has several features such as automatical reducement of branches without any affected individuals, etc. (entry from Genetic Analysis Software)
Proper citation: FASTER (RRID:SCR_009045) Copy
Software application that integrates a broad spectrum of data mining, statistical analysis, interactive visualization and modeling tools that allow QTL analysis based on advanced and sophisticated methods for maximum extraction of the mapping information from data. (entry from Genetic Analysis Software)
Proper citation: MULTIQTL (RRID:SCR_009043) Copy
http://galton.uchicago.edu/~mcpeek/software/spermseg
Software application for analysis of segregation in single-sperm data (entry from Genetic Analysis Software)
Proper citation: SPERMSEG (RRID:SCR_009044) Copy
http://cedar.genetics.soton.ac.uk/pub/PROGRAMS/ALLASS
Software application (entry from Genetic Analysis Software)
Proper citation: ALLASS (RRID:SCR_009040) Copy
http://cooke.gsf.de/wjst/download.cfm
Software application that allows pedigree entry and retrieval from an internet browser into a distant MS ACCESS database. Includes IP access restriction, automatic numbering of families and individuals and database consistency checks. (entry from Genetic Analysis Software)
Proper citation: PEDJAVA (RRID:SCR_008429) Copy
http://www.nhgri.nih.gov/DIR/IDRB/GASP/
Software tool for testing and investigating methods in statistical genetics by generating samples of family data based on user specified models. (entry from Genetic Analysis Software), THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.
Proper citation: GASP (RRID:SCR_008703) Copy
http://www.mds.qmw.ac.uk/statgen/dcurtis/software.html
THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 5th,2023. Software application for TDT test on markers with more than two alleles using a logistic regression analysis. (entry from Genetic Analysis Software).
Proper citation: ETDT (RRID:SCR_007576) Copy
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