Searching the RRID Resource Information Network
Are you sure you want to leave this community? Leaving the community will revoke any permissions you have been granted in this community.
SciCrunch Registry is a curated repository of scientific resources, with a focus on biomedical resources, including tools, databases, and core facilities - visit SciCrunch to register your resource.
| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
HAPLORE Resource Report Resource Website 1+ mentions |
HAPLORE (RRID:SCR_009226) | HAPLORE | software resource, software application | 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 | 2026-02-14 02:07:10 | 5 | ||||||||
|
GEMS Resource Report Resource Website 100+ mentions |
GEMS (RRID:SCR_009188) | GEMS | software resource, software application | 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 | 2026-02-14 02:07:00 | 463 | ||||||
|
GENECOUNTING Resource Report Resource Website 10+ mentions |
GENECOUNTING (RRID:SCR_009189) | GENECOUNTING | software resource, software application | 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 | 2026-02-14 02:07:15 | 12 | ||||||
|
GCHAP Resource Report Resource Website 1+ mentions |
GCHAP (RRID:SCR_009186) | GCHAP | software resource, software application | 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 | 2026-02-14 02:06:46 | 7 | ||||||
|
GAP Resource Report Resource Website |
GAP (RRID:SCR_009183) | GAP | software resource, software application | THIS RESOURCE IS NO LONGER IN SERVCE, documented September 21, 2016. Software package for the management and analysis of pedigree data. it offers: 1. Powerful database management tools, specifically designed for family data; 2. Automatic pedigree drawing; 3. Segregation and linkage analysis, based on traditional maximum likelihood methods and newer, more powerful, Monte Carlo methods that can model both genetic and environmental factors. (entry from Genetic Analysis Software) | gene, genetic, genomic, c++, ms-windows, (3.1/95/nt), unix, solaris | is listed by: Genetic Analysis Software | nlx_154321 | SCR_009183 | genetic analysis package | 2026-02-14 02:07:00 | 0 | ||||||||
|
LOH-LINKAGE Resource Report Resource Website |
LOH-LINKAGE (RRID:SCR_009259) | LOH-LINKAGE | software resource, software application | Software program using loss of heterozygosity data to enhance the power to detect linkage in cancer families. (entry from Genetic Analysis Software) | gene, genetic, genomic, c, unix | is listed by: Genetic Analysis Software | nlx_154438 | SCR_009259 | 2026-02-14 02:07:11 | 0 | |||||||||
|
LOCUSZOOM Resource Report Resource Website 500+ mentions |
LOCUSZOOM (RRID:SCR_009257) | LOCUSZOOM | software resource, software application | 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 | 2026-02-14 02:07:16 | 719 | |||||||||
|
LAMARC Resource Report Resource Website 10+ mentions |
LAMARC (RRID:SCR_009252) | LAMARC | software resource, software application | 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 | 2026-02-14 02:07:03 | 46 | ||||||
|
LINKAGE-IMPRINT Resource Report Resource Website |
LINKAGE-IMPRINT (RRID:SCR_009253) | LINKAGE-IMPRINT | software resource, software application | Software application that is a parametric model-based approach to analyzing pedigree data for genomic imprinting. They have modified widely used LINKAGE program to incorporate imprinting. In addition, the LINKAGE-IMPRINT program allows for the use of sex-specific recombination in the analysis, which is of particular importance in a genome-wide analysis for imprinted genes. (entry from Genetic Analysis Software) | gene, genetic, genomic, c, pascal, unix, solaris | is listed by: Genetic Analysis Software | nlx_154430 | SCR_009253 | LINKAGE allowing for IMPRINITING | 2026-02-14 02:07:16 | 0 | ||||||||
|
KING Resource Report Resource Website 1000+ mentions |
KING (RRID:SCR_009251) | KING | software resource, software application | 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 | 2026-02-14 02:07:10 | 1124 | ||||||||
|
JLIN Resource Report Resource Website 1+ mentions |
JLIN (RRID:SCR_009247) | JLIN | software resource, software application | 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 | 2026-02-14 02:07:10 | 9 | ||||||||
|
JOINMAP Resource Report Resource Website 1000+ mentions |
JOINMAP (RRID:SCR_009248) | JOINMAP | software resource, software application | 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 | 2026-02-14 02:07:02 | 1049 | ||||||||
|
IMPUTE Resource Report Resource Website 500+ mentions |
IMPUTE (RRID:SCR_009245) | IMPUTE | software resource, software application | 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 | 2026-02-14 02:07:16 | 628 | |||||||||
|
MDR-PDT Resource Report Resource Website 1+ mentions |
MDR-PDT (RRID:SCR_009243) | MDR-PDT | software resource, software application | 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 | 2026-02-14 02:07:10 | 2 | ||||||||
|
INTERSNP Resource Report Resource Website 10+ mentions |
INTERSNP (RRID:SCR_009244) | INTERSNP | software resource, software application | 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 | 2026-02-14 02:07:02 | 18 | ||||||||
|
HTSNPER Resource Report Resource Website 1+ mentions |
HTSNPER (RRID:SCR_009242) | HTSNPER | software resource, software application | 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 | 2026-02-14 02:06:48 | 2 | ||||||
|
HS-TDT Resource Report Resource Website 1+ mentions |
HS-TDT (RRID:SCR_009240) | HS-TDT | software resource, software application | 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 | 2026-02-14 02:07:02 | 4 | |||||||
|
MARGARITA Resource Report Resource Website 1+ mentions |
MARGARITA (RRID:SCR_009279) | MARGARITA | software resource, software application | Software application that infers genealogies from population genotype data and uses these to map disease loci. These genealogies take the form of the Ancestral Recombination Graph (ARG). The ARG defines a genealogical tree for each locus, and as one moves along the chromosome the topologies of consecutive trees shift according to the impact of historical recombination events. (entry from Genetic Analysis Software) | gene, genetic, genomic, java | is listed by: Genetic Analysis Software | nlx_154460 | SCR_009279 | 2026-02-14 02:06:48 | 2 | |||||||||
|
MAPINSPECT Resource Report Resource Website 100+ mentions |
MAPINSPECT (RRID:SCR_009277) | MAPINSPECT | software resource, software application | Software application that can be used to compare linkage maps obtained from different sources/populations/etc.. It will draw the linkage maps and look for common marker names, these are then connected in the drawing with dashed lines. All neighboring maps are compared in this way. Images can be printed and saved. Orders of the MAPs (ie which map is compared with which other map) can be changed and maps can be flipped (right mouse button). remark: MapComp bears close relationships with the GGT software package (entry from Genetic Analysis Software), THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | gene, genetic, genomic, delphi pascal, ms-window (32-bit) | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154458 | SCR_009277 | GGT | 2026-02-14 02:07:03 | 324 | |||||||
|
MAPDISTO Resource Report Resource Website 100+ mentions |
MAPDISTO (RRID:SCR_009275) | MAPDISTO | software resource, software application | Software program for mapping genetic markers in experimental segregating populations like backcross, doubled haploids, single-seed descent. Its specificity is to propose recombination fraction estimates in case of segregation distortion. It can (1) compute and draw genetic maps easily and quickly through a graphical interface; (2) facilitate the analysis of marker data showing segregation distortion due to differential viability of gametes or zygotes. (entry from Genetic Analysis Software), THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | gene, genetic, genomic, ms-excel | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154456 | SCR_009275 | 2026-02-14 02:06:48 | 115 |
Can't find your Tool?
We recommend that you click next to the search bar to check some helpful tips on searches and refine your search firstly. Alternatively, please register your tool with the SciCrunch Registry by adding a little information to a web form, logging in will enable users to create a provisional RRID, but it not required to submit.
Welcome to the NIF Resources search. From here you can search through a compilation of resources used by NIF and see how data is organized within our community.
You are currently on the Community Resources tab looking through categories and sources that NIF has compiled. You can navigate through those categories from here or change to a different tab to execute your search through. Each tab gives a different perspective on data.
If you have an account on NIF then you can log in from here to get additional features in NIF such as Collections, Saved Searches, and managing Resources.
Here is the search term that is being executed, you can type in anything you want to search for. Some tips to help searching:
If you are logged into NIF you can add data records to your collections to create custom spreadsheets across multiple sources of data.
Here are the facets that you can filter the data by.
If you have any further questions please check out our FAQs Page to ask questions and see our tutorials. Click this button to view this tutorial again.
Welcome to the Neuroscience Information Framework Project, designed to serve the biomedical research community. NIF maintains the largest searchable collection of neuroscience data, the largest catalog of biomedical resources, and the largest ontology for neuroscience on the web. We welcome all feedback and suggestions and are actively looking for resource providers to make their resources accessible through NIF. Learn about the tools available to help you share your data and discover a dynamic inventory of Web-based neuroscience resources.
