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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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BAMA Resource Report Resource Website 50+ mentions |
BAMA (RRID:SCR_009071) | BAMA | software application, software resource | Software application to select a trait-associated subset of markers among many candidates. The program is based on Bayesian modeling/estimation and it suits for both quantitative and qualitative traits. It can handle bi- and multiallelic markers as well as applied in situations where part of the marker genotypes may be missing. As an output of the program, one obtains posterior estimate of number and positions of trait-associated markers. (entry from Genetic Analysis Software), THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | gene, genetic, genomic, c, linux | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154065 | SCR_009071 | Bayesian Analysis of Multilocus Association | 2026-02-15 09:19:57 | 98 | |||||||
|
HARDY Resource Report Resource Website 5000+ mentions |
HARDY (RRID:SCR_009107) | HARDY | software application, software resource | Markov chain Monte Carlo program for association in two-dimensional contingency tables, and for testing Hardy-Weinberg equilibrium. (entry from Genetic Analysis Software) | gene, genetic, genomic, c, unix, (dec-unix/..) | is listed by: Genetic Analysis Software | nlx_154205 | SCR_009107 | PANGAEA | 2026-02-15 09:20:03 | 7329 | ||||||||
|
PBAT Resource Report Resource Website 50+ mentions |
PBAT (RRID:SCR_009105) | PBAT | software application, software resource | An interactive software package that provides tools for the design and the data analysis of family-based association studies. (entry from Genetic Analysis Software) | gene, genetic, genomic | is listed by: Genetic Analysis Software | nlx_154203 | SCR_009105 | Power calculation of family-Based Association Tests FBAT | 2026-02-15 09:19:38 | 75 | ||||||||
|
HELIXTREE Resource Report Resource Website 10+ mentions |
HELIXTREE (RRID:SCR_009067) | HELIXTREE | software application, software resource | THIS RESOURCE IS NO LONGER IN SERVCE, documented September 22, 2016. | gene, genetic, genomic, c++, ms-windows, linux, macos x | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154059 | http://www.goldenhelix.com/SNP_Variation/HelixTree | SCR_009067 | HelixTree Genetic Association Software | 2026-02-15 09:19:56 | 24 | ||||||
|
FINESSE Resource Report Resource Website |
FINESSE (RRID:SCR_009100) | FINESSE | software application, software resource | THIS RESOURCE IS NO LONGER IN SERVCE, documented September 22, 2016. Software application to incorporate regressive models into the VITESSE likelihood engine. | gene, genetic, genomic, linux, unix, solaris | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154193 | SCR_009100 | VITESSE | 2026-02-15 09:20:04 | 0 | |||||||
|
SVCC Resource Report Resource Website 1+ mentions |
SVCC (RRID:SCR_009068) | SVCC | software application, software resource | THIS RESOURCE IS NO LONGER IN SERVICE, documented September 29, 2016. | gene, genetic, genomic, linux | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154060 | http://www.bios.unc.edu/~lin/software/SVCC/ | SCR_009068 | Semiparametric Variance-Component for Censored data | 2026-02-15 09:19:37 | 3 | ||||||
|
GENECLASS Resource Report Resource Website 50+ mentions |
GENECLASS (RRID:SCR_009065) | GENECLASS | software application, software resource | Software application employing multilocus genotypes to select or exclude populations as origins of individuals (Assignment and Migrants Detection). (entry from Genetic Analysis Software) | gene, genetic, genomic, delphi, ms-windos, unix | is listed by: Genetic Analysis Software | nlx_154053 | SCR_009065 | 2026-02-15 09:20:02 | 86 | |||||||||
|
CHIP2SPELL Resource Report Resource Website 1+ mentions |
CHIP2SPELL (RRID:SCR_009060) | CHIP2SPELL | software application, software resource | Software application that aims to speed up the preparation of linkage data files passed on to the Alohomora software for data from the Affymetrix or Illumina assays. Chip2Spell gathers the information necessary to supplement the genotype data (such as the genetic map of the markers and the population-specific allele frequencies) from publicly available annoation files from Affymetrix and Illumina. The program formats the genotype data for input into the Alohomora program. (entry from Genetic Analysis Software) | gene, genetic, genomic, perl, linux, ms-windows | is listed by: Genetic Analysis Software | nlx_154045 | SCR_009060 | 2026-02-15 09:19:37 | 1 | |||||||||
|
BOOSTRAPPER Resource Report Resource Website 1+ mentions |
BOOSTRAPPER (RRID:SCR_009135) | BOOSTRAPPER | software application, software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 16,2023. Robust haploblock border reliability estimation tool implemented for LD based haploblock detection method. The most important new features are bootstrapping and overlapping block borders. (entry from Genetic Analysis Software) | gene, genetic, genomic, ms-window, linux | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154250 | SCR_009135 | 2026-02-15 09:19:57 | 2 | ||||||||
|
BOOLD Resource Report Resource Website |
BOOLD (RRID:SCR_009134) | BOOLD | software application, software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 16,2023. A set of programs for calculations under different linkage disequilibrium (LD) distribution models (entry from Genetic Analysis Software) | gene, genetic, genomic, c++, fortran 77, perl, unix, linux | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154248 | SCR_009134 | 2026-02-15 09:20:04 | 0 | ||||||||
|
BIOLAD-DB Resource Report Resource Website 1+ mentions |
BIOLAD-DB (RRID:SCR_009131) | BIOLAD-DB | software application, software resource | Software application that is a research bioinformatics system for inputting, validating, organizing, archiving, analyzing, and processing of complex clinical and genetic data. The database schema employs design principles for handling complex clinical information, such as response items in genetic questionnaires. Data access and validation is provided by the BiolAD-DB client application, which features a data validation engine tightly coupled to a graphical user interface. Data integrity is provided by the password protected BiolAD-DB SQL compliant server database. BiolAD-DB tools further provide functionalities for generating customized reports and views. (entry from Genetic Analysis Software) | gene, genetic, genomic, python, ms-windows | is listed by: Genetic Analysis Software | nlx_154244 | SCR_009131 | 2026-02-15 09:19:57 | 1 | |||||||||
|
BIOIDE Resource Report Resource Website |
BIOIDE (RRID:SCR_009130) | BIOIDE | software application, software resource | Collection of data analysis tools and interrelated biomedical information in a single easy-to-use software package that includes a component-based software/data integration platform that can quickly transform fragmented enterprise legacy data and software into an integrated suite of tools and knowledge base to achieve maximal usability, interoperability, scalability, and extensibility. (entry from Genetic Analysis Software), THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | gene, genetic, genomic | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154243 | SCR_009130 | BIOmedical Integrated Discovery Environment | 2026-02-15 09:20:04 | 0 | |||||||
|
HAPLOWSER Resource Report Resource Website |
HAPLOWSER (RRID:SCR_009095) | HAPLOWSER | software application, software resource | Software application (entry from Genetic Analysis Software) | gene, genetic, genomic, java | is listed by: Genetic Analysis Software | nlx_154113 | SCR_009095 | HAPLotype brOWSER | 2026-02-15 09:20:04 | 0 | ||||||||
|
MOSCPHASER Resource Report Resource Website |
MOSCPHASER (RRID:SCR_009092) | MOSCPHASER | software application, software resource | THIS RESOURCE IS NO LONGER IN SERVICE, documented September 29, 2016. Software application for inferring haplotypes composed of both CNV alleles and SNP alleles. | gene, genetic, genomic, bio.tools |
is listed by: Genetic Analysis Software is listed by: Debian is listed by: bio.tools |
PMID:18492685 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154109, biotools:mocsphaser | https://bio.tools/mocsphaser | http://emu.src.riken.jp/MOCSphase/MOSCphaser.zip | SCR_009092 | Mixture Of Cnv-Snp PHASER | 2026-02-15 09:19:57 | 0 | ||||
|
UMAKE Resource Report Resource Website 1+ mentions |
UMAKE (RRID:SCR_009093) | UMAKE | software application, software resource | Software pipeline to detect SNPs and call their genotypes from a list of BAM files. UMAKE pipeline has been successfully applied in detecting SNPs from many large-scale next-generation sequencing studies. (entry from Genetic Analysis Software) | gene, genetic, genomic | is listed by: Genetic Analysis Software | nlx_154110 | SCR_009093 | 2026-02-15 09:19:38 | 3 | |||||||||
|
LEA Resource Report Resource Website 1+ mentions |
LEA (RRID:SCR_009090) | LEA | software application, software resource | Software application (entry from Genetic Analysis Software), THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | gene, genetic, genomic, c++, ms-windows | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154107 | SCR_009090 | Likelihood-based Estimation of Admixture | 2026-02-15 09:20:03 | 1 | |||||||
|
ASP/ASPSHARE Resource Report Resource Website 1+ mentions |
ASP/ASPSHARE (RRID:SCR_009128) | ASP/ASPSHARE | software application, software resource | Software applications including ASP, a power calculator for gene mapping using a sibpair design (concordant or discordant) and ASPSHARE, which complements ASP in that it allows rapid calculation of the expected ibd sharing at the trait locus, based upon the model parameters, and the incidence corresponding to the respective parameters. (entry from Genetic Analysis Software) | gene, genetic, genomic | is listed by: Genetic Analysis Software | nlx_154233 | SCR_009128 | 2026-02-15 09:19:38 | 3 | |||||||||
|
BIMBAM Resource Report Resource Website 50+ mentions |
BIMBAM (RRID:SCR_009129) | BIMBAM | software application, software resource | Software application (entry from Genetic Analysis Software) | gene, genetic, genomic | is listed by: Genetic Analysis Software | nlx_154242 | SCR_009129 | Bayesian IMputation-Based Association Mapping | 2026-02-15 09:20:04 | 77 | ||||||||
|
ARIEL Resource Report Resource Website 10+ mentions |
ARIEL (RRID:SCR_009126) | ARIEL | software application, software resource | Software application that explores the effects of rare variants within complex traits through locus-based analysis. There is increasing evidence that rare variants play a role in some complex traits, but their analysis is not straightforward. Locus-based tests become necessary due to low power in rare variant single-point association analyses. In addition, variant quality scores are available for sequencing data, but are rarely taken into account. To enable this analysis, ARIEL has been developed as a locus-wide regression-based collapsing approach that incorporates variant quality scores. (entry from Genetic Analysis Software) | gene, genetic, genomic, r, unix, linux | is listed by: Genetic Analysis Software | nlx_154231 | SCR_009126 | Accumulation of Rare variants Integrated and Extended Locus-specific test | 2026-02-15 09:20:04 | 47 | ||||||||
|
APL-OSA Resource Report Resource Website |
APL-OSA (RRID:SCR_009124) | APL-OSA | software application, software resource | Software application that in the presence of genetic heterogeneity, can identify a genetically homogenous subset of families based on a trait-related covariate. APL-OSA then tests the relationship between the association statistics (i.e., the APL statistics) calculated based on the subset and the family-specific covariate. APL-OSA is based on the OSA method for linkage and the family-based association test, APL. Thus, APL-OSA has similar properties with OSA and APL. Bi-alleleic markers such as SNPs are accepted by APL-OSA. APL-OSA is a single-marker test and considers one covariate each time. (entry from Genetic Analysis Software) | gene, genetic, genomic, c++, unix, solaris, linux(redhat), ms-windows, xp | is listed by: Genetic Analysis Software | nlx_154229 | http://wwwchg.duhs.duke.edu/research/aplosa.html | SCR_009124 | Association in the Presence of Linkage with Ordered Subset Analysis | 2026-02-15 09:19:38 | 0 |
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