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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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SIB-PAIR Resource Report Resource Website 1+ mentions |
SIB-PAIR (RRID:SCR_009382) | software application, software resource | Software program that performs a number of simple analyses of family data that tend to be nonparametric or robust in nature, includes IBD and IBS based APM, Haseman-Elston sib pair, TDT and association analyses. (entry from Genetic Analysis Software) | gene, genetic, genomic, fortran77 | is listed by: Genetic Analysis Software | nlx_154617 | http://www2.qimr.edu.au/davidD | SCR_009382 | 2026-09-19 12:58:05 | 9 | |||||||||
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SIBLINK Resource Report Resource Website |
SIBLINK (RRID:SCR_009381) | software application, software resource | Software application that allows the user to perform multipoint linkage analysis based on estimated IBD sharing between affected sibpairs. IBD sharing is inferred from IBS status, given marker genotypes, frequencies, and locations. Resulting LOD scores are maximized across a grid of possible disease locations and IBD sharing vectors. (entry from Genetic Analysis Software) | gene, genetic, genomic, c++, unix, solaris, linux, bio.tools |
is listed by: Genetic Analysis Software is listed by: bio.tools is listed by: Debian |
biotools:siblink, nlx_154616 | https://bio.tools/siblink | http://wwwchg.duhs.duke.edu/software/siblink.html | SCR_009381 | 2026-09-19 12:58:05 | 0 | ||||||||
|
SWEEP Resource Report Resource Website 10+ mentions |
SWEEP (RRID:SCR_009418) | SWEEP | software application, software resource | Software application that allows large-scale analysis of haplotype structure in genomes for the primary purpose of detecting evidence of natural selection. Primarily, it uses the Long Range Haplotype test to look for alleles of high frequency with long-range linkage disequilibrium, which suggest the haplotype rapidly rose to high frequency before recombination could break down associations with nearby markers. SWEEP takes phased genotype data as input, detects all haplotype blocks in that data, and then determines the frequency and long-range LD for each allele in each block. (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 |
biotools:sweep, nlx_154667 | https://bio.tools/sweep | SCR_009418 | 2026-09-19 12:58:06 | 32 | ||||||||
|
SUMSTAT Resource Report Resource Website 10+ mentions |
SUMSTAT (RRID:SCR_009416) | software application, software resource | Software application that assess the joint disease association of multiple unlinked SNPs via sums of SNP specific test statistics. Genome-wide significance levels are obtained by per mutation analysis. (entry from Genetic Analysis Software) | gene, genetic, genomic, free pascal, ms-windows, linux, bio.tools |
is listed by: Genetic Analysis Software is listed by: bio.tools is listed by: Debian |
nlx_154663, biotools:sumstat | https://bio.tools/sumstat | SCR_009416 | 2026-09-19 12:58:06 | 11 | |||||||||
|
SUP Resource Report Resource Website |
SUP (RRID:SCR_009417) | software application, software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May,6th, 2021. Software application as extension to SLINK/FastSLINK to allow more marker loci to be simulated in pedigrees conditional on trait values and in linkage equilibrium or disequilibrium with trait locus. entry from Genetic Analysis Software. | gene, genetic, genomic, c, c++, unix, linux, cygwin, bio.tools |
is listed by: Genetic Analysis Software is listed by: Debian is related to: SLINK is related to: FASTSLINK is related to: bio.tools |
PMID:16803631 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154664, biotools:sup | https://bio.tools/sup | SCR_009417 | Slink Utility Program | 2026-09-19 12:58:06 | 0 | ||||||
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TAGSTER Resource Report Resource Website 1+ mentions |
TAGSTER (RRID:SCR_009413) | software application, software resource | Software tool to select, evaluate and visualize LD tag SNPs for single or multiple populations. The input files can be a set of dumped genotype files from International HapMap Project (http://www.hapmap.org/) (Hapmap format) or Seattle SNPs (http://pga.gs.washington.edu/) (Prettybase format). The ouput is a set of LD tag SNPs for single or multiple populations. (entry from Genetic Analysis Software) | gene, genetic, genomic, perl, r, linux, macos, ms-windows | is listed by: Genetic Analysis Software | nlx_154673 | SCR_009413 | 2026-09-19 12:58:06 | 2 | ||||||||||
|
PANGAEA Resource Report Resource Website 100+ mentions |
PANGAEA (RRID:SCR_013119) | PANGAEA | software application, software resource | Collection of nine software packages for genetic analysis: BOREL, HARDY, MORGAN (now 2 and 3), Pedpack, InSegT, Loki, MCLEEPS, Pedfiddler, and Eclipse. | gene, genetic, genomic, c, or, c++, unix, (compaq, solaris, and others), linux |
is listed by: Genetic Analysis Software is related to: BOREL |
nlx_154507 | SCR_013119 | Pedigree ANalysis for Genetics (And Epidemiological Attributes) | 2026-09-19 12:58:09 | 136 | ||||||||
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PEDPACK Resource Report Resource Website 1+ mentions |
PEDPACK (RRID:SCR_013125) | software application, software resource | Software programs for pedigree analysis, including segregation analysis, gene extinction, and pedigree graphics. (entry from Genetic Analysis Software) | gene, genetic, genomic, c, unix, (compaq-alpha/..) | is listed by: Genetic Analysis Software | nlx_154523 | SCR_013125 | PANGAEA | 2026-09-19 12:58:09 | 4 | |||||||||
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SASGENE Resource Report Resource Website |
SASGENE (RRID:SCR_013084) | software application, software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 24,2023. SAS software program for gene segregation and linkage analysis in breeding population (entry from Genetic Analysis Software) | gene, genetic, genomic, sas, bio.tools |
is listed by: Genetic Analysis Software is listed by: bio.tools is listed by: Debian |
THIS RESOURCE IS NO LONGER IN SERVICE | biotools:sasgene, nlx_154608 | https://bio.tools/sasgene | SCR_013084 | 2026-09-19 12:58:09 | 0 | ||||||||
|
TASSEL Resource Report Resource Website 1000+ mentions |
TASSEL (RRID:SCR_012837) | TASSEL | software application, software resource | Software package which performs a variety of genetic analyses including association mapping, diversity estimation and calculating linkage disequilibrium. The association analysis between genotypes and phenotypes can be performed by either a general linear model or a mixed linear model. The general linear model now allows users to analyze complex field designs, environmental interactions, and epistatic interactions. The mixed model is specially designed to handle polygenic effects at multiple levels of relatedness including pedigree information. These new analyses should permit association analysis in a wide range plant and animal species. (entry from Genetic Analysis Software) | gene, genetic, genomic, java, web-based, bio.tools |
is listed by: Genetic Analysis Software is listed by: bio.tools is listed by: Debian is listed by: SoftCite |
nlx_154674, biotools:tassel | http://sourceforge.net/projects/tassel/, https://bio.tools/tassel | SCR_012837 | and Linkage, Trait Analysis by aSSociation, Evolution | 2026-09-19 12:58:08 | 2476 | |||||||
|
MCLEEPS Resource Report Resource Website |
MCLEEPS (RRID:SCR_013062) | software application, software resource | Software application (entry from Genetic Analysis Software) | gene, genetic, genomic, c++, unix, macos | is listed by: Genetic Analysis Software | nlx_154469 | SCR_013062 | Monte Carlo Likelihood Estimation of Effective Population Size PANGAEA | 2026-09-19 12:58:08 | 0 | |||||||||
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UTIL Resource Report Resource Website 1+ mentions |
UTIL (RRID:SCR_009424) | UTIL | software application, software resource | Software application (entry from Genetic Analysis Software) | gene, genetic, genomic, pascal, ms-windows, linux | is listed by: Genetic Analysis Software | PMID:23546798 | nlx_154685 | SCR_009424 | statistical genetics UTILity programs | 2026-09-19 12:58:06 | 2 | |||||||
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TREESELECT Resource Report Resource Website 1+ mentions |
TREESELECT (RRID:SCR_009422) | software application, software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 6th,2023. Software package for inferring natural selection from unusual population differentiation between closely related populations. (entry from Genetic Analysis Software) | gene, genetic, genomic | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154682 | SCR_009422 | 2026-09-19 12:58:06 | 4 | |||||||||
|
PRESTO: Genetic Association Analysis Software Resource Report Resource Website 1+ mentions |
PRESTO: Genetic Association Analysis Software (RRID:SCR_013285) | software application, software resource | Software application that performs permutation testing and computes empirical distributions of order statistics for one and two stage association studies with stratified or unstratified data. | gene, genetic, genomic, java, ms-windows, unix, solaris, linux, macos |
is listed by: Genetic Analysis Software is listed by: Debian is listed by: OMICtools |
DOI:10.1093/bioinformatics/btu138 | nlx_154549 | SCR_013285 | 2026-09-19 12:58:09 | 2 | |||||||||
|
THESIAS Resource Report Resource Website 50+ mentions |
THESIAS (RRID:SCR_013449) | THESIAS | software application, software resource | Software program that performs haplotype-based association analysis in unrelated individuals. This program is based on a maximum likelihood model described in Tregouet et al. 2002 and is linked to the stochastic EM (SEM) algorithm. THESIAS allows the simultaneous estimation of haplotype frequencies and of their associated effects on the phenotype of interest. In its current version, both quantitative and qualitative phenotypes can be studied. Covariate-adjusted haplotype effects as well as haplotype x covariate interactions can be investigated. (entry from Genetic Analysis Software) | gene, genetic, genomic, ms-windows, linux, bio.tools |
is listed by: Genetic Analysis Software is listed by: Debian is listed by: bio.tools is listed by: OMICtools |
DOI:10.1093/bioinformatics/btm058 | nlx_154102, OMICS_19747, biotools:tHESIAS | https://bio.tools/THESIAS, https://sources.debian.org/src/thesias/ | http://ecgene.net/genecanvas/downloads.php?cat_id=1 | SCR_013449 | Testing Haplotype EffectS In Association Studies | 2026-09-19 12:58:10 | 53 | |||||
|
DMLE Resource Report Resource Website 10+ mentions |
DMLE (RRID:SCR_013454) | DMLE | software application, software resource | Software application for high-resolution mapping of the position of a disease mutation relative to a set of genetic markers using population linkage disequilibrium (LD). (entry from Genetic Analysis Software) | gene, genetic, genomic, linux, ms-windows | is listed by: Genetic Analysis Software | nlx_154218 | SCR_013454 | Disease Mapping using Linkage disEquilibrium | 2026-09-19 12:58:10 | 22 | ||||||||
|
MOLKIN Resource Report Resource Website 10+ mentions |
MOLKIN (RRID:SCR_013262) | software application, software resource | A population genetics computer program that conducts several genetic analyses on multilocus information in a user-friendly environment. Primary functions carried out by MOLKIN are the computation of the between individuals (and populations) molecular coancestry coefficients, the Kinship distance at individual and population levels. Additionally, users can compute with MOLKIN a set of among populations, genetic distances and F statistics from multilocus information. The program will help researchers or those responsible for population management to assess genetic variability and population structure at reduced costs with respect to dataset preparation (entry from Genetic Analysis Software) | gene, genetic, genomic | is listed by: Genetic Analysis Software | nlx_154041 | SCR_013262 | 2026-09-19 12:58:09 | 17 | ||||||||||
|
HAPSTAT Resource Report Resource Website 10+ mentions |
HAPSTAT (RRID:SCR_013382) | HAPSTAT | software application, software resource | Software interface for the statistical analysis of haplotype-disease association. HAPSTAT allows the user to estimate or test haplotype effects and haplotype-environment interactions by maximizing the (observed-data) likelihood that properly accounts for phase uncertainty and study design. The current version considers cross-sectional, case-control and cohort studies. (entry from Genetic Analysis Software) | gene, genetic, genomic, ms-windows, (xp/2000/nt/98) | is listed by: Genetic Analysis Software | nlx_154395 | SCR_013382 | 2026-09-19 12:58:10 | 37 | |||||||||
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GWASELECT Resource Report Resource Website |
GWASELECT (RRID:SCR_013303) | GWASELECT | software application, software resource | Software application that implements a novel variable selection method for GWAS data and is able to handle more than half million SNPs. Extensive simulation studies and real data analysis show that this method enjoys high power and low false discovery rate compared to existing variable selection methods. The variables selected by GWASelect can be readily placed into a logistic regression model for disease prediction. The current release is designed for binary outcome under the additive mode of inheritance. (entry from Genetic Analysis Software) | gene, genetic, genomic | is listed by: Genetic Analysis Software | nlx_154370 | SCR_013303 | 2026-09-19 12:58:09 | 0 | |||||||||
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R/QTLDESIGN Resource Report Resource Website 1+ mentions |
R/QTLDESIGN (RRID:SCR_013424) | software application, software resource | Software application to help plan quantitative trait locus (QTL) experiments. (entry from Genetic Analysis Software) | gene, genetic, genomic, r | is listed by: Genetic Analysis Software | nlx_154598 | https://cran.r-project.org/web/packages/qtlDesign/index.html | SCR_013424 | 2026-09-19 12:58:10 | 9 |
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