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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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MUTAGENESYS Resource Report Resource Website |
MUTAGENESYS (RRID:SCR_009309) | MUTAGENESYS | software application, software resource | Software application that uses genome-wide genotype data to estimate disease susceptibility. Our system integrates three data sources: HapMap, whole-genome marker correlation data, and OMIM database. It accepts SNP data of individuals as query input and delivers disease susceptibility hypotheses even if the original set of typed SNPs is incomplete. (entry from Genetic Analysis Software) | gene, genetic, genomic | is listed by: Genetic Analysis Software | nlx_154499 | SCR_009309 | 2026-09-12 01:02:44 | 0 | |||||||||
|
MULTIMAPPER/OUTBRED Resource Report Resource Website |
MULTIMAPPER/OUTBRED (RRID:SCR_009306) | MULTIMAPPER/OUTBRED | software application, software resource | Bayesian QTL mapping software for analysing backcross and F2 data from designed crossing experiments of outbred lines (entry from Genetic Analysis Software) | gene, genetic, genomic, c | is listed by: Genetic Analysis Software | PMID:10101181 | nlx_154496 | SCR_009306 | 2026-09-12 01:02:44 | 0 | ||||||||
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MULTIPOPTAGSELECT Resource Report Resource Website 1+ mentions |
MULTIPOPTAGSELECT (RRID:SCR_009307) | MULTIPOPTAGSELECT | software application, software resource | Software program that selects a near-minimal set of tagging single-nucleotide polymorphisms (tagSNPs) that account for all observed patterns of linkage disequilibrium (LD) in multiple populations. (entry from Genetic Analysis Software) | gene, genetic, genomic, perl | is listed by: Genetic Analysis Software | nlx_154497 | SCR_009307 | 2026-09-12 01:02:44 | 1 | |||||||||
|
MULTIDISEQ Resource Report Resource Website |
MULTIDISEQ (RRID:SCR_009304) | MULTIDISEQ | software application, software resource | A multipoint linkage analysis software which allows Marker-Marker LD (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_154494, biotools:multidiseq | https://bio.tools/multidiseq | SCR_009304 | 2026-09-12 01:02:44 | 0 | ||||||||
|
MULTIMAPPER Resource Report Resource Website 1+ mentions |
MULTIMAPPER (RRID:SCR_009305) | MULTIMAPPER | software application, software resource | Bayesian QTL mapping software for analysing backcross, double haploid, and F2 data from designed crossing experiments of inbred lines (entry from Genetic Analysis Software) | gene, genetic, genomic, c | is listed by: Genetic Analysis Software | nlx_154495 | SCR_009305 | 2026-09-12 01:02:44 | 1 | |||||||||
|
MPDA Resource Report Resource Website 10+ mentions |
MPDA (RRID:SCR_009303) | MPDA | software application, software resource | A tool for analyzing hybridization intensity data from microarray-based pooled DNA experiments. MPDA was developed under the software platform, MATLABR, and provided user-friendly interfaces adapted to Windows systems (Windows 98, Windows 2000 and Windows XP). or users without installing software MATLABR, we also developed stand-alone executables generated via the MATLABR compiler. MPDA provides four major functions: (1) Whole-genome DNA amplification/hybridization analysis, (2) Allele frequency estimation, (3) Association mapping, (4) Allelic imbalance detection. Graphic and numerical outputs from MPDA support global and detailed inspection for bulk of genomic data. (entry from Genetic Analysis Software) | gene, genetic, genomic, matlabr, ms-windows, (windows98/2000/xp), bio.tools |
is listed by: Genetic Analysis Software is listed by: bio.tools is listed by: Debian |
biotools:mpda, nlx_154492 | https://bio.tools/mpda | SCR_009303 | Microarray Pooled DNA Analyser | 2026-09-12 01:02:44 | 12 | |||||||
|
SIMPED Resource Report Resource Website 1+ mentions |
SIMPED (RRID:SCR_009388) | software application, software resource | Software program that quickly generates haplotypes and/or genotype data for a large number of marker loci (>20,000) for pedigrees of virtually any size and complexity. Haplotypes and/or genotypes are generated using user specified genetic map distances and haplotypes and/or allele frequencies. (entry from Genetic Analysis Software) | gene, genetic, genomic, c, unix, ms-window, linux, bio.tools |
is listed by: Genetic Analysis Software is listed by: bio.tools is listed by: Debian |
biotools:simped, nlx_154627 | https://bio.tools/simped | http://www.hgsc.bcm.tmc.edu/genemapping | SCR_009388 | 2026-09-12 01:02:45 | 1 | ||||||||
|
SNP CHART Resource Report Resource Website |
SNP CHART (RRID:SCR_009386) | software application, software resource | Software application to generate visual patterns that can be easily interpreted as a single specific Single Nucleotide Polymorphism (SNP) genotype, based on reiterative pattern recognition from validated SNP data (entry from Genetic Analysis Software) | gene, genetic, genomic, java, web-based | is listed by: Genetic Analysis Software | nlx_154624 | SCR_009386 | 2026-09-12 01:02:45 | 0 | ||||||||||
|
SIMHAP Resource Report Resource Website 1+ mentions |
SIMHAP (RRID:SCR_009384) | SimHap | software application, software resource | Software application providing a comprehensive modelling framework and a multiple-imputation approach to haplotypic analysis of population-based data. It uses biallelic SNP genotype data to impute haplotype frequencies at the individual level. SimHap also tests for haplotype associations with outcomes of interest while incorporating the uncertainty around inferred haplotypes into the modelling procedure. SimHap allows epidemiological (ie, non-genetic) and both single SNP and haplotype association analyses of quantitative Normal, binary, longitudinal and right-censored outcomes under a range of genetic models. SimHap can accommodate large data sets, and can model genetic and environmental effects, including complex haplotype:environment interactions. SimHap features cross-platform functionality via Java, and a sophisticated graphical user interface (GUI). SimHap will also perform association analysis on more simple epidemiological models, with or without the inclusion of genetic covariates. (entry from Genetic Analysis Software) | gene, genetic, genomic, java |
is listed by: OMICtools is listed by: Genetic Analysis Software has parent organization: University of Western Australia; Perth; Australia |
PMID:19109877 | nlx_154621, OMICS_00246 | http://www.genepi.org.au/simhap | SCR_009384 | SIMulation-based HAPlotypic analysis | 2026-09-12 01:02:45 | 2 | ||||||
|
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 | 2026-09-12 01:02:45 | 9 | |||||||||
|
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 | 2026-09-12 01:02:45 | 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 | 2026-09-12 01:02:46 | 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 | 2026-09-12 01:02:46 | 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 | 2026-09-12 01:02:46 | 0 | ||||||
|
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 | 2026-09-12 01:02:46 | 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) | 2026-09-12 01:02:48 | 136 | ||||||||
|
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 | 2026-09-12 01:02:48 | 4 | |||||||||
|
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 | 2026-09-12 01:02:48 | 0 | ||||||||
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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 | 2026-09-12 01:02:48 | 2476 | |||||||
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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 | 2026-09-12 01:02:48 | 0 |
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