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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   

•   Source: SciCrunch Registry

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   

•   Source: SciCrunch Registry

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   

•   Source: SciCrunch Registry

http://www-gene.cimr.cam.ac.uk/clayton/software/

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 12,2023. Software application that tests for association between genetic marker and disease by examining the transmission of markers from parents to affected offspring. The main features which differ from other similar programs are: (1) It can deal with transmission of multi-locus haplotypes, even if phase is unknown, and (2) Parental genotypes may be unknown. (entry from Genetic Analysis Software)

Proper citation: TRANSMIT (RRID:SCR_007571) Copy   

•   Source: SciCrunch Registry

http://aspex.sourceforge.net/

A set of programs for performing multipoint exclusion mapping of affected sibling pair data for discrete traits. (entry from Genetic Analysis Software)

Proper citation: ASPEX (RRID:SCR_008414) Copy   

•   Source: SciCrunch Registry

http://mlemire.freeshell.org/software.html

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 12,2023. Software application with implementation of the Sad statistic, more robust to transmission ratio distortion in the context of allele sharing (entry from Genetic Analysis Software)

Proper citation: GENEHUNTER++SAD (RRID:SCR_008777) Copy   

•   Source: SciCrunch Registry

https://github.com/gaow/genetic-analysis-software/blob/master/pages/MAPMAKER%26SIBS.md

THIS RESOURCE IS NO LONGER IN SERVCE, documented September 22, 2016. Data analysis software for complete multipoint analysis.

Proper citation: MAPMAKER/SIBS (RRID:SCR_008012) Copy   

•   Source: SciCrunch Registry

http://associationviewer.vital-it.ch/

A Java application used to display SNPs in a genetic context. Supplementary data (such as genes or LD plots) is downloaded from various public data sources on the fly and saved locally in a cache. Custom data can be added as supplementary tracks. (entry from Genetic Analysis Software)

Proper citation: ASSOCIATIONVIEWER (RRID:SCR_009063) Copy   

•   Source: SciCrunch Registry

https://github.com/gaow/genetic-analysis-software/blob/master/pages/WHICHRUN.md

THIS RESOURCE IS NO LONGER IN SERVCE, documented September 22, 2016. Software application that uses multilocus genotypic data to allocate individuals to their most likely source population.

Proper citation: WHICHRUN (RRID:SCR_009064) Copy   

•   Source: SciCrunch Registry

http://www.mapmanager.org/mmQTX.html

A graphic, interactive program to map quantitative trait loci using intercrosses, backcrosses or recombinant inbred strains in experimental plants or animals. A completely rewritten cross-platform version of Map Manager QT with enhanced analysis functions. (entry from Genetic Analysis Software)

Proper citation: MAP MANAGER QTX (RRID:SCR_009061) Copy   

•   Source: SciCrunch Registry

https://github.com/gaow/genetic-analysis-software/blob/master/pages/G-MENDEL.md

Software tool for construction of genetic linkage maps and analyzing Mendelian phenotypes. (entry from Genetic Analysis Software)

Proper citation: G-MENDEL (RRID:SCR_009062) Copy   

•   Source: SciCrunch Registry

http://www.pierroton.inra.fr/genetics/labo/Software/Famoz/index.html

Software application that uses likelihood calculation and simulation to perform parentage studies with codominant, dominant, cytoplasmic markers or combinations of the different types (entry from Genetic Analysis Software)

Proper citation: FAMOZ (RRID:SCR_007477) Copy   

•   Source: SciCrunch Registry

http://www.mds.qmw.ac.uk/statgen/dcurtis/software.html

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 5th,2023. Software application that uses Monte Carlo method for assessing significance of a case-control association study with multi-allelic marker. (entry from Genetic Analysis Software).

Proper citation: CLUMP (RRID:SCR_007476) Copy   

•   Source: SciCrunch Registry

http://gaow.github.io/genetic-analysis-software/t-1.html#tlinkage

Software programs that are extensions of the LINKAGE programs that allow the disease phenotype to be under the control of disease two loci. (entry from Genetic Analysis Software)

Proper citation: TLINKAGE (RRID:SCR_008838) Copy   

•   Source: SciCrunch Registry

http://research.nhgri.nih.gov/software/TRAP/

Software tool for determining a regression model of quantitative or binary trait variation when the number of possible genetic predictors is very large, considering only a moderate number of predictors at one time, using unrelated or family data. (entry from Genetic Analysis Software)

Proper citation: TRAP (RRID:SCR_009002) Copy   

•   Source: SciCrunch Registry

http://mga.bionet.nsc.ru/soft/mgamapf2/

Software application that map QTLs in F-2 intercross in model organisms (entry from Genetic Analysis Software)

Proper citation: MGA-MAPF2 (RRID:SCR_008108) Copy   

•   Source: SciCrunch Registry

http://www.uni-bonn.de/~umt70e/soft.htm

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 5th,2023. Software application for calculation of the restricted likelihood-ratio affected sib-pair test for linkage allowing for imprinting (entry from Genetic Analysis Software)

Proper citation: ILR (RRID:SCR_007895) Copy   

•   Source: SciCrunch Registry

https://github.com/gaow/genetic-analysis-software/blob/master/pages/2SNP.md

THIS RESOURCE IS NO LONGER IN SERVCE, documented September 22, 2016. An algorithm resource for scalable phasing method for trios and unrelated individuals.

Proper citation: 2SNP (RRID:SCR_009038) Copy   

•   Source: SciCrunch Registry

https://github.com/gaow/genetic-analysis-software/blob/master/pages/AGEINF.md

THIS RESOURCE IS NO LONGER IN SERVCE, documented September 22, 2016. Software application used to infer the age of a rare, selectively-neutral mutation.

Proper citation: AGEINF (RRID:SCR_009039) Copy   

•   Source: SciCrunch Registry

http://csg.sph.umich.edu/boehnke/sibmed.php

Software application that identifies likely genotyping errors and mutations for a sib pair in the context of multipoint mapping. (entry from Genetic Analysis Software)

Proper citation: SIBMED (RRID:SCR_007495) Copy   

•   Source: SciCrunch Registry