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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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SNP-HWE Resource Report Resource Website 1+ mentions |
SNP-HWE (RRID:SCR_008555) | SNP-HWE | software application, software resource | Software application for a fast exact Hardy-Weinberg Equilibrium test for SNPs (entry from Genetic Analysis Software) | gene, genetic, genomic, fortran, c, c++, r | is listed by: Genetic Analysis Software | nlx_154645 | SCR_008555 | 2026-07-26 09:04:38 | 4 | |||||||||
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PEDPEEL Resource Report Resource Website |
PEDPEEL (RRID:SCR_008436) | PEDPEEL | software application, software resource | Software program that prepares pedigree data for calculation of Elston-Stewarts'' likelihood function. It finds an optimal way to peel a pedigree and returns text file containing 7 description arrays (entry from Genetic Analysis Software) | gene, genetic, genomic, bio.tools |
is listed by: Genetic Analysis Software is listed by: bio.tools is listed by: Debian |
nlx_154524, biotools:pedpeel | https://bio.tools/pedpeel | SCR_008436 | 2026-07-26 09:04:39 | 0 | ||||||||
|
GENOME Resource Report Resource Website 50+ mentions |
GENOME (RRID:SCR_008949) | GENOME | software application, software resource | Software application to simulate sequences drawn from a population under the Wright-Fisher neutral model. The purpose of this program is to simulate sequences on the whole genome scale within practical time. (entry from Genetic Analysis Software) | gene, genetic, genomic, c++, unix, solaris, linux, ms-windows | is listed by: Genetic Analysis Software | nlx_154347 | SCR_008949 | 2026-07-26 09:04:47 | 63 | |||||||||
|
ET-TDT Resource Report Resource Website |
ET-TDT (RRID:SCR_007657) | ET-TDT | software application, software resource | Software application (entry from Genetic Analysis Software) | gene, genetic, genomic, ms-dos | is listed by: Genetic Analysis Software | nlx_154304 | SCR_007657 | Evolutionary Tree - Transmission Disequilibrium Test | 2026-07-26 09:04:30 | 0 | ||||||||
|
TAGSNP Resource Report Resource Website 50+ mentions |
TAGSNP (RRID:SCR_008623) | TAGSNP | software application, software resource | Software application (entry from Genetic Analysis Software) | gene, genetic, genomic, fortran90 | is listed by: Genetic Analysis Software | nlx_154671 | SCR_008623 | 2026-07-26 09:04:37 | 69 | |||||||||
|
2DMAP Resource Report Resource Website |
2DMAP (RRID:SCR_009036) | 2DMAP | software application, software resource | THIS RESOURCE IS NO LONGER IN SERVCE, documented September 22, 2016. Software application for constructing 2-d crossover-based map. | gene, genetic, genomic, ms-dos | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154001 | SCR_009036 | 2026-07-26 09:04:49 | 0 | ||||||||
|
ADMIXMAP Resource Report Resource Website 10+ mentions |
ADMIXMAP (RRID:SCR_009035) | ADMIXMAP | software application, software resource | General-purpose program for modelling admixture, using marker genotypes and trait data on a sample of individuals from an admixed population (such as African-Americans), where the markers have been chosen to have extreme differentials in allele frequencies between two or more of the ancestral populations between which admixture has occurred. The main difference between ADMIXMAP and classical programs for estimation of admixture such as ADMIX is that ADMIXMAP is based on a multilevel model for the distribution of individual admixture in the population and the stochastic variation of ancestry on hybrid chromosomes. This makes it possible to model the associations of ancestry between linked marker loci, and the association of a trait with individual admixture or with ancestry at a linked marker locus. (entry from Genetic Analysis Software) | gene, genetic, genomic, c++, linux, ms-windows, bio.tools |
is listed by: Genetic Analysis Software is listed by: bio.tools is listed by: Debian |
nlx_153999, biotools:admixmap | https://bio.tools/admixmap | SCR_009035 | Admixture mapping | 2026-07-26 09:04:43 | 19 | |||||||
|
INTEGRAYEDMAP Resource Report Resource Website |
INTEGRAYEDMAP (RRID:SCR_007489) | INTEGRAYEDMAP | software application, software resource | THIS RESOURCE IS NO LONGER IN SERVCE, documented September 22, 2016. A web application and database schema for storing and interactively displaying genetic map data. | gene, genetic, genomic, ms-windows, (nt/2000/xp profession/), require either, oracle rdbms, or, mysql | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154099 | ftp://cggc.agtec.uga.edu/IntegratedMap/ | SCR_007489 | 2026-07-26 09:04:30 | 0 | |||||||
|
FINETTI Resource Report Resource Website 100+ mentions |
FINETTI (RRID:SCR_009179) | FINETTI | software application, software resource | Software application that tests for deviation from Hardy-Weinberg equilibrium and tests for association in case controls studies; Plot genotype frequencies graphically using a de Finetti diagram. (entry from Genetic Analysis Software) | gene, genetic, genomic, pascal, (web implementation: perl, c, php), web-based, ms-dos, ms-windows, (32), linux, (for stand-alone version) | is listed by: Genetic Analysis Software | nlx_154316 | SCR_009179 | de FINETTI generator | 2026-07-26 09:04:45 | 283 | ||||||||
|
FBAT Resource Report Resource Website 50+ mentions |
FBAT (RRID:SCR_009178) | FBAT | software application, software resource | Software application that allows the user to test for association/linkage between disease phenotypes and haplotypes by utilizing family-based controls. The method extends the approach for testing described in Rabinowitz and Laird (2000) to handle multiple tightly linked markers. It is robust to population admixture, yet efficient in the sense that it utilizes data from families where phase cannot be completely resolved in all individuals by using weights, which are estimated from the sample. However, the method remains robust to population stratification and population admixture. The method can handle any type of phenotype, including multiple phenotypes and missing parents, marker data, and/or phase, and provides both bi-allelic and multi-allelic tests. PowerFBAT is a tool for power simulation of association analysis using FBAT with binary outcomes. XWXW is an extension to the Haseman-Elston method for non-parametric linkage test with quantitative traits. XDT is a software that performs classical TDT, SDT and Rabinowitz TDT for nuclear families (not supported anymore). (entry from Genetic Analysis Software) | gene, genetic, genomic, unix, solaris, linux, ms-windows, mac, macos x, darwin | is listed by: Genetic Analysis Software | nlx_154315 | SCR_009178 | (haplotype) Family Based Association Test PBAT | 2026-07-26 09:04:53 | 77 | ||||||||
|
R/META Resource Report Resource Website 50+ mentions |
R/META (RRID:SCR_009175) | R/META | software application, software resource | Software application for fixed and random effects meta-analysis. Functions for tests of bias, forest and funnel plot. (entry from Genetic Analysis Software) | gene, genetic, genomic, r | is listed by: Genetic Analysis Software | nlx_154307 | SCR_009175 | 2026-07-26 09:04:53 | 54 | |||||||||
|
EHP Resource Report Resource Website |
EHP (RRID:SCR_009170) | software application, software resource | Software application that provides variance estimates for haplotype frequency estimates, it allows several kinds of missing information in the genotype data, it also allows for combined genotype data of different pool sizes. This program can be used for testing haplotype-disease associations in case control studies by calculating the likelihood ratio test: 2 log(likelihood for cases) + 2 log(likelihood for controls) - 2 log(likelihood for case+controls). (entry from Genetic Analysis Software) | gene, genetic, genomic, r/s-plus | is listed by: Genetic Analysis Software | SCR_009101, nlx_154293, nlx_154194 | SCR_009170 | Estimation of Haplotype frequencies from Pooled DNA samples EH, R/EHP, EHP.R | 2026-07-26 09:04:45 | 0 | |||||||||
|
EHAP Resource Report Resource Website 1+ mentions |
EHAP (RRID:SCR_009169) | EHAP | software application, software resource | Software application detecting association between haplotypes and phenotypes (entry from Genetic Analysis Software) | gene, genetic, genomic | is listed by: Genetic Analysis Software | nlx_154292 | SCR_009169 | 2026-07-26 09:04:53 | 5 | |||||||||
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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 | 2026-07-26 09:04:53 | 1 | ||||||||
|
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 | 2026-07-26 09:04:44 | 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 | 2026-07-26 09:04:44 | 63 | |||||||||
|
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 | 2026-07-26 09:04:44 | 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 | 2026-07-26 09:04:51 | 2 | ||||||
|
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 | 2026-07-26 09:04:44 | 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 | 2026-07-26 09:04:51 | 0 |
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