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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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HAPLO.STAT Resource Report Resource Website 10+ mentions |
HAPLO.STAT (RRID:SCR_009227) | HAPLO.STAT | software application, software resource | A suite of routines for the analysis of indirectly measured haplotypes. (entry from Genetic Analysis Software) | gene, genetic, genomic, s-plus 6.1.2, r 1.7.1, unix | is listed by: Genetic Analysis Software | nlx_154384 | SCR_009227 | previously HAPLO.SCORE | 2026-08-09 09:05:13 | 10 | ||||||||
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HAPLORE Resource Report Resource Website 1+ mentions |
HAPLORE (RRID:SCR_009226) | HAPLORE | software application, software resource | Software application for haplotype reconstruction in general pedigree without recombination (entry from Genetic Analysis Software) | gene, genetic, genomic | is listed by: Genetic Analysis Software | nlx_154383 | SCR_009226 | HAPLOtype REconstruction in pedigrees | 2026-08-09 09:05:07 | 5 | ||||||||
|
GEMS Resource Report Resource Website 100+ mentions |
GEMS (RRID:SCR_009188) | GEMS | software application, software resource | THIS RESOURCE IS NO LONGER IN SERVCE, documented September 22, 2016. Software application for fitting Genetic Epidemiology Models by running stochastic simulation in relation to disease dynamics. | gene, genetic, genomic, unix, (dec-alpha), linux | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154327 | http://statgen.genomecenter.howard.edu/gems.htm | SCR_009188 | Genetic Epidemiology ModelS | 2026-08-09 09:04:58 | 463 | ||||||
|
GENECOUNTING Resource Report Resource Website 10+ mentions |
GENECOUNTING (RRID:SCR_009189) | GENECOUNTING | software application, software resource | THIS RESOURCE IS NO LONGER IN SERVCE, documented September 22, 2016. Software application for gene-counting for haplotype analysis with permutation tests for global association and specific haplotypes, accounting for missing data. | gene, genetic, genomic, c, ms-windows, unix, solaris, linux | is listed by: Genetic Analysis Software | PMID:12490459 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154329 | http://www.mrc-epid.cam.ac.uk/Personal/jinghua.zhao/software/ | SCR_009189 | 2026-08-09 09:05:07 | 12 | ||||||
|
GCHAP Resource Report Resource Website 1+ mentions |
GCHAP (RRID:SCR_009186) | GCHAP | software application, software resource | THIS RESOURCE IS NO LONGER IN SERVCE, documented September 22, 2016. Software application that finds maximum likelihood estimates of haplotype frequencies from a sample of genotyped individuals. By excluding haplotypes with zero MLE at an early stage, this implementation uses many orders of magnitude less space and time than naive implementations. A second program, ApproxGCHap, is provided to give alternate estimates for data sets with large numbers of loci or large amounts of missing genotypes. | gene, genetic, genomic, java | is listed by: Genetic Analysis Software | PMID:14555636 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154325 | SCR_009186 | Gene Counting method for HAPlotype analysis. GENEPI.JAR | 2026-08-09 09:05:07 | 7 | ||||||
|
LOCUSZOOM Resource Report Resource Website 500+ mentions |
LOCUSZOOM (RRID:SCR_009257) | LOCUSZOOM | software application, software resource | Software application designed to facilitate viewing of local association results together with useful information about a locus, such as the location and orientation of the genes it includes, linkage disequilibrium coefficients and local estimates of recombination rates. It was developed by popular demand, as a result of many questions we have had about How did you make the figures in your talk? or How did you make the figures for your GWAS paper? (entry from Genetic Analysis Software) | gene, genetic, genomic | is listed by: Genetic Analysis Software | nlx_154436 | SCR_009257 | 2026-08-09 09:05:14 | 772 | |||||||||
|
LAMARC Resource Report Resource Website 10+ mentions |
LAMARC (RRID:SCR_009252) | LAMARC | software application, software resource | Software application that estimates effective population sizes, exponential population growth rates, and past migration rates between two or n populations, and simultaneously estimates the per-nucleotide recombination rate. Currently Lamarc can use DNA or RNA sequence data, SNP data, and microsatellite data. (entry from Genetic Analysis Software) | gene, genetic, genomic, c++, linux, ms-windows, macos |
is listed by: Genetic Analysis Software is listed by: Debian is listed by: OMICtools |
DOI:10.1016/j.tree.2008.09.007 | OMICS_28408, nlx_154420 | https://sources.debian.org/src/lamarc/ | SCR_009252 | Likelihood Analysis with Metropolis Algorithm using Random Coalescence | 2026-08-09 09:04:59 | 46 | ||||||
|
KING Resource Report Resource Website 1000+ mentions |
KING (RRID:SCR_009251) | KING | software application, software resource | Software toolset that makes use of high-throughput SNP data typically seen in a genome-wide association study (GWAS) for applications such as family relationship inference and population structure identification (entry from Genetic Analysis Software) | gene, genetic, genomic, c++, linux, (64bit), ms-windows, ms-dos, macos, ubuntu, (32bit) | is listed by: Genetic Analysis Software | nlx_154419 | SCR_009251 | Kinship-based INference for Gwas | 2026-08-09 09:05:13 | 1175 | ||||||||
|
JLIN Resource Report Resource Website 1+ mentions |
JLIN (RRID:SCR_009247) | JLIN | software application, software resource | Software application designed for customizable, intuitive visualisation of LD analysis across all common computing platforms. Customisation allows the researcher to choose particular visualisation, statistical measures and measurement ranges. JLIN also allows the researcher to export images of the LD visualisation in several common document formats. As there appears to be no single best measure of LD under all possible circumstances, JLIN allows the researcher to visually compare and contrast the results of a range of statistical measures on the input data set(s). These measures include the commonly used D'' and R2 statistics and empirical p-values. New additions include calculation of HWE, a completely revamped interface, and a numer of minor bug fixes. We have added a display measure to show marker distances visually, embedded fonts to improve image clarity and additional LD measures including d,OR,Pexcess and Q. (entry from Genetic Analysis Software) | gene, genetic, genomic, java, any with java 1.5 support | is listed by: Genetic Analysis Software | nlx_154415 | SCR_009247 | Java based LINkage disequilibrium plotter | 2026-08-09 09:05:08 | 9 | ||||||||
|
JOINMAP Resource Report Resource Website 1000+ mentions |
JOINMAP (RRID:SCR_009248) | JOINMAP | software application, software resource | Software application for construction of genetic linkage maps for several types of mapping populations: BC1, F2, RILs, (doubled) haploids, outbreeders full-sib family. Can combine (''join'') data derived from several sources into an integrated map. Further: linkage group determination, automatic phase determination for outbreeders full-sib family, several diagnostics, and map charts. Everything available in an intuitive MS-Windows user interface. (entry from Genetic Analysis Software) | gene, genetic, genomic, ansi c, delphi, ms-windows, (95/98/me/nt4.0/2000) | is listed by: Genetic Analysis Software | nlx_154416 | SCR_009248 | Software for the calculation of genetic linkage maps | 2026-08-09 09:05:13 | 1072 | ||||||||
|
IMPUTE Resource Report Resource Website 500+ mentions |
IMPUTE (RRID:SCR_009245) | IMPUTE | software application, software resource | Software application for estimating (imputing) unobserved genotypes in SNP association studies. The program is designed to work seamlessly with the output of the genotype calling program CHIAMO and the population genetic simulator HAPGEN, and it produces output that can be analyzed using the program SNPTEST. (entry from Genetic Analysis Software) | gene, genetic, genomic |
is listed by: Genetic Analysis Software is listed by: SoftCite |
nlx_154411 | SCR_009245 | 2026-08-09 09:05:13 | 639 | |||||||||
|
MDR-PDT Resource Report Resource Website 1+ mentions |
MDR-PDT (RRID:SCR_009243) | MDR-PDT | software application, software resource | Software application (entry from Genetic Analysis Software) | gene, genetic, genomic | is listed by: Genetic Analysis Software | nlx_154406 | SCR_009243 | Multifactor Dimensionality Reduction and genotype Pedigree Disequilibrium Test | 2026-08-09 09:04:59 | 2 | ||||||||
|
INTERSNP Resource Report Resource Website 10+ mentions |
INTERSNP (RRID:SCR_009244) | INTERSNP | software application, software resource | Software application for genome-wide interaction analysis (GWIA) of case-control SNP data. SNPs are selected for joint analysis using a priori information. Sources of information to define meaningful strategies can be statistical evidence (single marker association at a moderate level, computed from the own data) and genetic/biologic relevance (genomic location, function class or pathway information). (entry from Genetic Analysis Software) | gene, genetic, genomic, c/c++, unix, ms-windows, macos | is listed by: Genetic Analysis Software | nlx_154409 | SCR_009244 | genome-wide association and INTERaction analysis of SNP | 2026-08-09 09:05:08 | 18 | ||||||||
|
HTSNPER Resource Report Resource Website 1+ mentions |
HTSNPER (RRID:SCR_009242) | HTSNPER | software application, software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on January 4, 2023.Java program for characterizing the haplotype block structure and selecting haplotype tagging SNP (entry from Genetic Analysis Software) | gene, genetic, genomic, c++, jvm, ms-windows, linux | is listed by: Genetic Analysis Software | PMID:15740612 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154403 | SCR_009242 | Haplotype Tagging SNPer | 2026-08-09 09:05:13 | 2 | ||||||
|
HS-TDT Resource Report Resource Website 1+ mentions |
HS-TDT (RRID:SCR_009240) | HS-TDT | software application, software resource | Software application for testing association using tightly linked markers in nuclear pedigrees (entry from Genetic Analysis Software) | gene, genetic, genomic, unix, ms-windows, bio.tools |
is listed by: Genetic Analysis Software is listed by: bio.tools is listed by: Debian |
nlx_154401, biotools:hs-tdt | https://bio.tools/hs-tdt | SCR_009240 | Haplotype Sharing Transmission Disequilibrium Test | 2026-08-09 09:04:59 | 4 | |||||||
|
DGENE Resource Report Resource Website 1+ mentions |
DGENE (RRID:SCR_009158) | DGENE | software application, software resource | THIS RESOURCE IS NO LOGER IN SERVICE. Documented on May 16,2023. A simple dBASE III program for the management of pedigree and locus data. It permits easy extraction of genetic data for use with MENDEL and FISHER. (entry from Genetic Analysis Software) | gene, genetic, genomic, dbase iii, ms-dos | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LOGER IN SERVICE | nlx_154281 | SCR_009158 | 2026-08-09 09:05:06 | 7 | ||||||||
|
COPE Resource Report Resource Website 500+ mentions |
COPE (RRID:SCR_009153) | COPE | software application, software resource | Software application that includes a Java program for drawing pedigrees and a standardized system for pedigree storage. Unlike other existing pedigree programs, this software is particularly intended for epidemiologists in the sense that it allows customized automatic drawing of large numbers of pedigrees and remote and distributed consultation of pedigrees. (entry from Genetic Analysis Software) | gene, genetic, genomic, java |
is listed by: Genetic Analysis Software is parent organization of: COPE: Cytokines and Cells Online Pathfinder Encyclopaedia |
nlx_154274 | SCR_009153 | COllaborative Pedigree drawing Environment | 2026-08-09 09:05:10 | 852 | ||||||||
|
PROBMAX Resource Report Resource Website 1+ mentions |
PROBMAX (RRID:SCR_009337) | PROBMAX | software application, software resource | Software application for assigning unknown parentage in pedigree analysis from known genotypic pools of parents and progeny (entry from Genetic Analysis Software) | gene, genetic, genomic | is listed by: Genetic Analysis Software | nlx_154550 | SCR_009337 | 2026-08-09 09:05:00 | 1 | |||||||||
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PROC QTL Resource Report Resource Website 1+ mentions |
PROC QTL (RRID:SCR_009338) | PROC QTL | software application, software resource | Software application that is a user defined SAS procedure for mapping quantitative trait loci (QTL). Since this procedure is not a built-in SAS procedure, users need to obtain a copy of the executable file of PROC QTL and install the software in their personal computers before PROC QTL can be executed. Of course, users need a regular SAS license prior to the installation of PROC QTL. Once PROC QTL is installed, it can be called just like any other SAS procedures. Users will not notice the differences between this customized procedure and other built-in SAS procedures. (entry from Genetic Analysis Software) | gene, genetic, genomic, c++, ms-windows | is listed by: Genetic Analysis Software | nlx_154551 | SCR_009338 | 2026-08-09 09:05:09 | 6 | |||||||||
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POWERTRIM Resource Report Resource Website 1+ mentions |
POWERTRIM (RRID:SCR_009333) | POWERTRIM | software application, software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on January 11,2023. Software application that automate the decision to remove objects from a pedigree with a minimum loss information (entry from Genetic Analysis Software) | gene, genetic, genomic, perl | is listed by: Genetic Analysis Software | PMID:12677557 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154545 | SCR_009333 | 2026-08-09 09:05:17 | 1 |
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