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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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JENTI Resource Report Resource Website |
JENTI (RRID:SCR_009053) | JENTI | software application, software resource | An efficient tool for mining complex inbred genealogies that identify clusters of individuals sharing the same expected amount of relatedness is described. Additionally it allows for the reconstruction of sub-pedigrees suitable for genetic mapping in a systematic way. (entry from Genetic Analysis Software) | gene, genetic, genomic, java | is listed by: Genetic Analysis Software | nlx_154033 | SCR_009053 | 2026-08-04 09:42:17 | 0 | |||||||||
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COMBIN Resource Report Resource Website |
COMBIN (RRID:SCR_009050) | COMBIN | software application, software resource | Software application designed for the construction of highly saturated linkage maps, based on BC1, DH, Radiation Hybrid or CP (CrossPollinators) data sets. F2 is not supported. (entry from Genetic Analysis Software) | gene, genetic, genomic, visual basic 5, ms-windows, (95/98/nt) | is listed by: Genetic Analysis Software | nlx_154025 | http://www.dpw.wau.nl/pv/pub/combin/ | SCR_009050 | 2026-08-04 09:42:17 | 0 | ||||||||
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ARLEQUIN Resource Report Resource Website 5000+ mentions |
ARLEQUIN (RRID:SCR_009051) | ARLEQUIN | software application, software resource | An exploratory population genetics software environment able to handle large samples of molecular data (RFLPs, DNA sequences, microsatellites), while retaining the capacity of analyzing conventional genetic data (standard multi-locus data or mere allele frequency data). (entry from Genetic Analysis Software) | gene, genetic, genomic, ms-windows, (95/98/nt/2000/xp) | is listed by: Genetic Analysis Software | nlx_154029 | SCR_009051 | this software is about the study of genetic polymorphism.), a character of the Italian Commedia dell''Arte. He has many aspects, but can switch among them very easily according to needs and necessities. Similarly, (French translation of Arlecchino | 2026-08-04 09:42:18 | 5536 | ||||||||
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GRONLOD Resource Report Resource Website |
GRONLOD (RRID:SCR_009049) | GRONLOD | software application, software resource | Conversion programs from LINKAGE files are available. The program uses peeling and can employ nested conditioning. There is an automatic peeling program that will unravel (multiple) loops. Alleles do not need to be recoded, so real allele sizes can be used. Genotype probabilities for a chosen person can be calculated for purposes of genetic risk calculation. Later versions include one for calculations using linked markers and mutations and mosaicism, made by Martin van der Meulen. A symbolic versions will generate the formula to compute the pedigree likelihood. (entry from Genetic Analysis Software) | gene, genetic, genomic, prolog, ms-windows, (3.1/95/nt) | is listed by: Genetic Analysis Software | nlx_154024 | SCR_009049 | GRONingen university LOR score calculation | 2026-08-04 09:42:16 | 0 | ||||||||
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SNP ASSISTANT Resource Report Resource Website |
SNP ASSISTANT (RRID:SCR_009048) | SNP ASSISTANT | software application, software resource | THIS RESOURCE IS NO LONGER IN SERVCE, documented September 22, 2016. Software application for SNP data managing, import & export from linkage format, data validation, pairwise LD calculation and visualisation, case-control and TDT tests, visual comparison of two datasets, relationships testing. Suitable for large projects. | gene, genetic, genomic, c++, ms-windows, (95 and newer) | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154023 | SCR_009048 | 2026-08-04 09:42:18 | 0 | ||||||||
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DHSMAP Resource Report Resource Website 1+ mentions |
DHSMAP (RRID:SCR_009160) | DHSMAP | software application, software resource | Software application for fine-mapping of qualitative traits by linkage disequilibrium. Given a set of marker haplotypes or genotypes from affected individuals, haplotypes or genotypes from appropriately selected controls, and a genetic map of the markers at which both sets of individuals are typed, DHSMAP estimates the location of the trait-associated variant by maximum likelihood or maximum quasi-likelihood. (entry from Genetic Analysis Software) | gene, genetic, genomic, c++, unix, solaris, linux | is listed by: Genetic Analysis Software | nlx_154282 | SCR_009160 | Decay of Haplotype Sharing MAPping software | 2026-08-04 09:42:18 | 1 | ||||||||
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AMELIA Resource Report Resource Website 100+ mentions |
AMELIA (RRID:SCR_009119) | AMELIA | software application, software resource | Software application that employs allele matching to analyse the effects of rare variants within a specific locus. There is increasing evidence that rare variants play a role in some complex traits, but their analysis is not straightforward. Locus-based tests become necessary due to low power in rare variant single-point association analyses. In addition, variant quality scores are available for sequencing data, but are rarely taken into account. To enable this analysis, AMELIA has been developed as an allele-matching approach that is robust to the presence of both directions of effect for variants within the locus analysed. (entry from Genetic Analysis Software) | gene, genetic, genomic, r, unix, linux | is listed by: Genetic Analysis Software | nlx_154222 | SCR_009119 | Allele Matching Empirical Locus-specific Integrated Association test | 2026-08-04 09:42:19 | 121 | ||||||||
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ALLEGRO Resource Report Resource Website 50+ mentions |
ALLEGRO (RRID:SCR_009116) | ALLEGRO | software application, software resource | Software application that is a faster version of GENEHUNTER and Allegro 1.2 (several degrees of increase of speed, can handle bigger families, up to 50 bits) (entry from Genetic Analysis Software) | gene, genetic, genomic, c++ | is listed by: Genetic Analysis Software | nlx_154217 | SCR_009116 | 2026-08-04 09:42:19 | 63 | |||||||||
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SIBSIM Resource Report Resource Website |
SIBSIM (RRID:SCR_009113) | SIBSIM | software application, software resource | THIS RESOURCE IS NO LONGER IN SERVCE, documented September 22, 2016. Software application that simulates either genotype and/or quantitative phenotype data in family structures in a modern, easy to use and highly scalable way. It is based on XML, completely written in C++ and published under the GNU General Public License. | gene, genetic, genomic, c++, xml, unix | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154212 | SCR_009113 | 2026-08-04 09:42:19 | 0 | ||||||||
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IGG Resource Report Resource Website 1+ mentions |
IGG (RRID:SCR_009114) | IGG | software application, software resource | THIS RESOURCE IS NO LONGER IN SERVCE, documented September 22, 2016. | gene, genetic, genomic, java, web-based | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154214 | http://bioinfo.hku.hk:13080/iggweb/ | SCR_009114 | Integrate Genotypes for genome-wide Genetic studies | 2026-08-04 09:42:17 | 2 | ||||||
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QTLNetwork Resource Report Resource Website 50+ mentions |
QTLNetwork (RRID:SCR_009078) | software application, software resource | Software package for mapping and visualizing the genetic architecture underlying complex traits for experimental populations derived from a cross between two inbred lines. (entry from Genetic Analysis Software). QTLNetwork-2.0 for mapping quantitative trait loci (QTL) with epistatic effects and QE interaction effects in DH, RI, BC, F2, IF2 and BxFy populations, and for graphical presentation of QTL mapping results. | gene, genetic, genomic | is listed by: Genetic Analysis Software | PMID:18202029 PMID:20593516 |
nlx_154076 | SCR_009078 | , QTLNetwork, QTL network 2, QTLNetwork 2.0 | 2026-08-04 09:42:18 | 50 | ||||||||
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TREELD Resource Report Resource Website |
TREELD (RRID:SCR_009111) | TREELD | software application, software resource | Free software tool for mapping complex trait loci. TreeLD performs a multipoint LD-analysis by inferring the ancestry of a genomic region and analyzing this ancestry for signals of disease mutations. The generated likelihoods can be used to test for the presence of a disease locus and to fine-map its location, providing a point estimate and a credible region. Furthermore, the package provides a novel way of visualizing the association signal in a sample. TreeLD is designed for high-density SNP haplotypes and can be applied to case-control data, TDT trio data and quantitative trait data. (entry from Genetic Analysis Software) | gene, genetic, genomic, unix, solaris, linux, ms-windows, (95/98/nt/2000/xp) | is listed by: Genetic Analysis Software | Free | nlx_154210 | SCR_009111 | 2026-08-04 09:42:17 | 0 | ||||||||
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MIXSCORE Resource Report Resource Website 1+ mentions |
MIXSCORE (RRID:SCR_009076) | MIXSCORE | software application, software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 16,2023. Software application using a method for combining SNP association and admixture association statistics to increase power in GWAS in admixed populations. (entry from Genetic Analysis Software) | gene, genetic, genomic | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154074 | SCR_009076 | 2026-08-04 09:42:17 | 6 | ||||||||
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POWQ Resource Report Resource Website |
POWQ (RRID:SCR_009077) | POWQ | software application, software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on January 9, 2023. A user-friendly, graphical package for power evaluation and enhancement planning through variance component linkage analysis in a multipoint framework. (entry from Genetic Analysis Software) | gene, genetic, genomic | is listed by: Genetic Analysis Software | PMID:16585065 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154075 | SCR_009077 | 2026-08-04 09:42:17 | 0 | |||||||
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STRAT Resource Report Resource Website 10+ mentions |
STRAT (RRID:SCR_009110) | STRAT | software application, software resource | Software application that is a companion program to STRUCTURE that is a structured association method, for use in association mapping, enabling valid case-control studies even in the presence of population structure. (entry from Genetic Analysis Software) | gene, genetic, genomic, ms-dos, ms-windows, unix, solaris, linux |
is listed by: Genetic Analysis Software is related to: STRUCTURE is related to: STRUCTURE |
nlx_154208 | SCR_009110 | 2026-08-04 09:42:19 | 12 | |||||||||
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HAPLOVISUAL Resource Report Resource Website |
HAPLOVISUAL (RRID:SCR_009073) | HAPLOVISUAL | software application, software resource | Software application (entry from Genetic Analysis Software) | gene, genetic, genomic, java | is listed by: Genetic Analysis Software | nlx_154068 | SCR_009073 | 2026-08-04 09:42:16 | 0 | |||||||||
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FAMHAP Resource Report Resource Website 10+ mentions |
FAMHAP (RRID:SCR_009070) | FAMHAP | software application, software resource | Software application for haplotype association analysis of unphased genotype data. It can be used both for population data (case-control) and nuclear family data. The program is optimized for haplotype frequency estimation with the EM-algorithm for many markers. FAMHAP provides a method which searches for potential genotyping errors and several tests for haplotype-based association analysis. Particular emphasis is on Monte-Carlo simulations, which are necessary in the context of haplotype association, where asymptotic theory often fails, and in the context of multiple testing problems. (entry from Genetic Analysis Software) | gene, genetic, genomic, c, unix, ms-windows, macos | is listed by: Genetic Analysis Software | nlx_154064 | SCR_009070 | 2026-08-04 09:42:16 | 12 | |||||||||
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BAMA Resource Report Resource Website 50+ mentions |
BAMA (RRID:SCR_009071) | BAMA | software application, software resource | Software application to select a trait-associated subset of markers among many candidates. The program is based on Bayesian modeling/estimation and it suits for both quantitative and qualitative traits. It can handle bi- and multiallelic markers as well as applied in situations where part of the marker genotypes may be missing. As an output of the program, one obtains posterior estimate of number and positions of trait-associated markers. (entry from Genetic Analysis Software), THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | gene, genetic, genomic, c, linux | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154065 | SCR_009071 | Bayesian Analysis of Multilocus Association | 2026-08-04 09:42:17 | 98 | |||||||
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HARDY Resource Report Resource Website 5000+ mentions |
HARDY (RRID:SCR_009107) | HARDY | software application, software resource | Markov chain Monte Carlo program for association in two-dimensional contingency tables, and for testing Hardy-Weinberg equilibrium. (entry from Genetic Analysis Software) | gene, genetic, genomic, c, unix, (dec-unix/..) | is listed by: Genetic Analysis Software | nlx_154205 | SCR_009107 | PANGAEA | 2026-08-04 09:42:18 | 7329 | ||||||||
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PBAT Resource Report Resource Website 50+ mentions |
PBAT (RRID:SCR_009105) | PBAT | software application, software resource | An interactive software package that provides tools for the design and the data analysis of family-based association studies. (entry from Genetic Analysis Software) | gene, genetic, genomic | is listed by: Genetic Analysis Software | nlx_154203 | SCR_009105 | Power calculation of family-Based Association Tests FBAT | 2026-08-04 09:42:17 | 75 |
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