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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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HWESTRATA Resource Report Resource Website |
HWESTRATA (RRID:SCR_001097) | HWESTRATA | software resource, software application | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 24,2023. Software application that calculates an exact stratified test for HWE for diallelic markers, such as single nucleotide polymorphisms (SNPs), and an exact test for homogeneity of Hardy Weinberg disequilbrium. In addition, exact tests for HWE are calculated for each stratum. (entry from Genetic Analysis Software) | gene, genetic, genomic, c, unix, solaris, ms-windows, (xp) | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154405 | SCR_001097 | 2026-02-14 02:06:59 | 0 | ||||||||
|
GAS2 Resource Report Resource Website |
GAS2 (RRID:SCR_001126) | GAS2 | software resource, software application | Software application for evaluating Statistical Significance in Two-Stage Genomewide Association Studies (entry from Genetic Analysis Software) | gene, genetic, genomic, fortran77 | is listed by: Genetic Analysis Software | PMID:16408254 | nlx_154323 | SCR_001126 | statistical significance in Genomewide Association Studies in 2-stage | 2026-02-14 02:06:59 | 0 | |||||||
|
EQTL EXPLORER Resource Report Resource Website 1+ mentions |
EQTL EXPLORER (RRID:SCR_001123) | EQTL EXPLORER | software resource, software application | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 23,2022. An eQTL visualization tool that allows users to mine and understand data from a repository of genetical genomics experiments (entry from Genetic Analysis Software) | gene, genetic, genomic, java | is listed by: Genetic Analysis Software | PMID:16357031 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154018 | SCR_001123 | 2026-02-14 02:06:39 | 2 | |||||||
|
TDT-PC Resource Report Resource Website |
TDT-PC (RRID:SCR_001116) | TDT-PC | software resource, software application | Software program to compute the statistical power of the Transmission/Disequilibrium Test (TDT) analytically, based on the most accurate asymptotic algorithms up to date, and is applicable in very general situations, where different parental disease status, multiple children, mixed family type and recombination events are considered. Routine algorithms for Monte Carlo simulations with significant improvements are also implemented in this program. (entry from Genetic Analysis Software) | gene, genetic, genomic, c++, ms-windows, ms-dos, unix, solaris, bio.tools |
is listed by: Genetic Analysis Software is listed by: bio.tools is listed by: Debian |
PMID:11443734 | nlx_154677, biotools:tdt_power_calculator | https://bio.tools/tdt_power_calculator | SCR_001116 | Transmission Disequilibrium Test Power Calculator, TDT Power Calculator | 2026-02-14 02:06:30 | 0 | ||||||
|
BEAGLE Resource Report Resource Website 1000+ mentions |
BEAGLE (RRID:SCR_001789) | BEAGLE | software resource, software application | Software package for analysis of large-scale genetic data sets with hundreds of thousands of markers genotyped on thousands of samples. BEAGLE can * phase genotype data (i.e. infer haplotypes) for unrelated individuals, parent-offspring pairs, and parent-offspring trios. * infer sporadic missing genotype data. * impute ungenotyped markers that have been genotyped in a reference panel. * perform single marker and haplotypic association analysis. * detect genetic regions that are homozygous-by-descent in an individual or identical-by-descent in pairs of individuals. Beagle can also be used in conjunction with PRESTO, a program for fast and flexible permutation testing. PRESTO can compute empirical distributions of order statistics, analyze stratified data, and determine significance levels for one-stage and two-stage genetic association studies. BEAGLE is written in Java and runs on any computing platform with a Java version 1.6 interpreter (e.g. Windows, Unix, Linux, Solaris, Mac). | gene, genetic, genomic, java, ms-windows, linux, unix, solaris, macos, identity by descent, genotype, haplotype |
is listed by: OMICtools is listed by: Genetic Analysis Software is listed by: Debian has parent organization: University of Washington; Seattle; USA |
PMID:17924348 PMID:17326099 PMID:21310274 DOI:10.1086/521987 |
Free, Available for download, Freely available | nlx_154238, OMICS_00052, OMICS_00201 | https://sources.debian.org/src/beagle/ | https://www.stat.auckland.ac.nz/%7Ebrowning/beagle/beagle.html | SCR_001789 | BEAGLE Genetic Analysis Software Package | 2026-02-14 02:06:54 | 2197 | ||||
|
CYRILLIC Resource Report Resource Website 50+ mentions |
CYRILLIC (RRID:SCR_001823) | Cyrillic | software resource, software application, commercial organization | Software application for pedigree drawing with fully integrated risk analysis and support for industry standard databases (MS Access and Corel Paradox). It is designed for genetic counselors and others who work with patients. Cyrillic 2 draws pedigrees, works with genetic marker data, lets you do haplotyping and allows exports to a range of linkage analysis packages. | gene, genetic, genomic, visual c++, ms-windows, pedigree, linkage analysis, risk analysis, FASEB list |
is listed by: OMICtools is listed by: Genetic Analysis Software |
PMID:1973333 | Free, Available for download, Freely available | nlx_154279, OMICS_00208 | http://www.cyrillicsoftware.com | SCR_001823 | CyrillicSoftware | 2026-02-14 02:06:31 | 52 | |||||
|
CLUSTAG Resource Report Resource Website 1+ mentions |
CLUSTAG (RRID:SCR_001816) | CLUSTAG | software resource, software application | Software application that uses hierarchical clustering and graph methods for selecting tag SNPs (single nucleotide polymorphisms). Cluster and set-cover algorithms are developed to obtain a set of tag SNPs that can represent all the known SNPs in a chromosomal region, subject to the constraint that all SNPs must have a squared correlation R2 > C with at least one tag SNP, where C is specified by the user. The program is implemented with Java, and it can run in Windows platform as well as the Unix environment. | gene, genetic, genomic, java, hierarchical clustering, single nucleotide polymorphism, windows, unix |
is listed by: Genetic Analysis Software has parent organization: Hong Kong Baptist University; Hong Kong; China |
PMID:15585525 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154273 | http://hkumath.hku.hk/web/link/CLUSTAG/CLUSTAG.html | SCR_001816 | CLUSTAG: Hierarchical Clustering and Graph Methods for Selecting Tag SNPs | 2026-02-14 02:07:00 | 1 | |||||
|
MILD Resource Report Resource Website 100+ mentions |
MILD (RRID:SCR_003335) | MILD | software resource, software application | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 16,2023. Software application (entry from Genetic Analysis Software). | gene, genetic, genomic, unix, linux | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154480 | SCR_003335 | MultIallelic Linkage Disequilibrium: a program for adjusted linkage disequilibrium (LD) calculations | 2026-02-14 02:06:34 | 106 | |||||||
|
PAWE-3D Resource Report Resource Website 1+ mentions |
PAWE-3D (RRID:SCR_003326) | PAWE-3D | software resource, software application | Software application (entry from Genetic Analysis Software) | gene, genetic, genomic, web-based | is listed by: Genetic Analysis Software | PMID:16123114 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154481 | SCR_003326 | Power for Association With Error in 3D | 2026-02-14 02:07:03 | 2 | ||||||
|
GS-EM Resource Report Resource Website |
GS-EM (RRID:SCR_003992) | GS-EM | software resource, software application | Software application (entry from Genetic Analysis Software) | gene, genetic, genomic | is listed by: Genetic Analysis Software | nlx_154366 | SCR_003992 | GenoSpectrum Expectation-Maximuzation | 2026-02-14 02:07:04 | 0 | ||||||||
|
TDTPOWER Resource Report Resource Website |
TDTPOWER (RRID:SCR_005021) | TDTPOWER | software resource, software application | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 5th,2023. Software application that calculates the sample size required for obtaining a prescribed power against a specified alternative for TDT. (entry from Genetic Analysis Software) | gene, genetic, genomic, sas macro | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154678 | SCR_005021 | 2026-02-14 02:06:37 | 0 | ||||||||
|
POPDIST Resource Report Resource Website |
POPDIST (RRID:SCR_004904) | POPDIST | software resource, software application | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on January 11, 2023. Software application that calculates a number of different genetic identities, phylogeny reconstructing measures, and distance reconstructing measures (entry from Genetic Analysis Software) | gene, genetic, genomic, unix, (aix/irix/decalpha), linux, macos, ms-dos, ms-windows, (95) | is listed by: Genetic Analysis Software | PMID:21564908 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154542 | SCR_004904 | 2026-02-14 02:07:00 | 0 | |||||||
|
HAPLOCLUSTERS Resource Report Resource Website |
HAPLOCLUSTERS (RRID:SCR_007439) | HAPLOCLUSTERS | software resource, software application | Software program designed to detect excess haplotypes sharing in datasets consisting of case and control haplotypes. Excess haplotype sharing can be seen around disease loci in case samples since LD persists longer here than in the controls where LD is persisting only according to the relatedness of the individuals in the population, i.e. the age of the population. (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 |
Aging | nlx_154014, biotools:haploclusters | https://bio.tools/haploclusters | SCR_007439 | 2026-02-14 02:06:41 | 0 | |||||||
|
LDSUPPORT Resource Report Resource Website |
LDSUPPORT (RRID:SCR_007036) | software resource, software application | Software application (entry from Genetic Analysis Software) | gene, genetic, genomic, c, unix, linux | is listed by: Genetic Analysis Software | nlx_154427 | SCR_007036 | 2026-02-14 02:06:52 | 0 | ||||||||||
|
BETA Resource Report Resource Website 100+ mentions |
BETA (RRID:SCR_007556) | BETA | software resource, software application | Software application for non-parametric linkage analysis using allele sharing in sib pairs (entry from Genetic Analysis Software) | gene, genetic, genomic, c, unix, sun | is listed by: Genetic Analysis Software | nlx_154241 | SCR_007556 | 2026-02-14 02:07:09 | 127 | |||||||||
|
LINKAGE Resource Report Resource Website |
LINKAGE (RRID:SCR_007033) | software resource, software application | Standard software package for genetic linkage called LINKAGE. Genetic linkage analysis is statistical technique used to map genes and find approximate location of disease genes. | Genetic linkage analysis, map genes, find location, disease, genes |
is listed by: Genetic Analysis Software is listed by: bio.tools is listed by: Debian is related to: FASTLINK |
nlx_154346, biotools:linkage | https://bio.tools/linkage https://gaow.github.io/genetic-analysis-software/l/lcp/ https://gaow.github.io/genetic-analysis-software/l/linkage-general-pedigrees/ |
http://www.jurgott.org/linkage/LinkagePC | SCR_007033 | , Linkage Control Program | 2026-02-14 02:07:03 | 0 | |||||||
|
MAPCREATOR Resource Report Resource Website 1+ mentions |
MAPCREATOR (RRID:SCR_008001) | MAPCREATOR | software resource, software application | Software application to create gene maps using either radiation hybrid data or linkage data (entry from Genetic Analysis Software) | gene, genetic, genomic, perl | is listed by: Genetic Analysis Software | nlx_154455 | SCR_008001 | 2026-02-14 02:07:10 | 4 | |||||||||
|
Graphical Overview of Linkage Disequilibrium Resource Report Resource Website 1000+ mentions |
Graphical Overview of Linkage Disequilibrium (RRID:SCR_007151) | GOLD | software resource, software application | Software package that provides a graphical summary of linkage disequilibrium in human genetic data. The graphical summary is well suited to the analysis of dense genetic maps, where contingency tables are cumbersome to interpret. An interface to the Simwalk2 application allows for the analysis of family data. | gene, genetic, genomic |
is listed by: Genetic Analysis Software has parent organization: University of Michigan; Ann Arbor; USA |
PMID:10842743 | nlx_154363 | SCR_007151 | 2026-02-14 02:06:40 | 2212 | ||||||||
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BMAPBUILDER Resource Report Resource Website 1+ mentions |
BMAPBUILDER (RRID:SCR_007264) | BMAPBUILDER | software resource, software application | Software application (entry from Genetic Analysis Software) | gene, genetic, genomic, java, ms-windows, macos, unix, linux | is listed by: Genetic Analysis Software | nlx_154084 | SCR_007264 | 2026-02-14 02:07:03 | 1 | |||||||||
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R/STEPWISE Resource Report Resource Website 10+ mentions |
R/STEPWISE (RRID:SCR_007420) | software resource, software application | Software application that is a stepwise approach to identifying recombination breakpoints in a sequence alignment (entry from Genetic Analysis Software) | gene, genetic, genomic, r | is listed by: Genetic Analysis Software | nlx_154601, SCR_009103, nlx_154196 | http://stat-db.stat.sfu.ca:8080/statgen/research/stepwise/ | SCR_007420 | STEPWISE | 2026-02-14 02:06:53 | 15 |
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