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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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MENDELSOFT Resource Report Resource Website |
MENDELSOFT (RRID:SCR_013177) | software resource, software application | Software application for identifying all Mendelian inconsistencies in complex pedigree data with thousand of individuals, including many loops and several errors. Can also infer missing genotypes. (entry from Genetic Analysis Software) | gene, genetic, genomic, c++, unix, linux/cygwin, ms-windows, macos | is listed by: Genetic Analysis Software | nlx_154474 | SCR_013177 | 2026-08-12 10:50:44 | 0 | ||||||||||
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BEAGLECALL Resource Report Resource Website 1+ mentions |
BEAGLECALL (RRID:SCR_013301) | BEAGLECALL | software resource, software application | Software package for simultaneous genotype calling and haplotype phasing for unrelated individuals. BEAGLECALL produces output posterior genotype probabilities and output phased haplotypes. BEAGLECALL generates extremely accurate genotype calls because it uses both allele signal intensity data and inter-marker correlation to call genotypes. BEAGLECALL is designed for use with high-density SNP arrays, and it uses the BEAGLE haplotype frequency model to model inter-marker correlation. (entry from Genetic Analysis Software) | gene, genetic, genomic, java, ms-windows, unix, linux, macos | is listed by: Genetic Analysis Software | nlx_154239 | SCR_013301 | 2026-08-12 10:50:45 | 1 | |||||||||
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SPREG Resource Report Resource Website 1+ mentions |
SPREG (RRID:SCR_013261) | SPREG | software resource, software application | Software program for performing regression analysis of secondary phenotype data in case-control association studies. Secondary phenotypes are quantitative or qualitative traits other than the case-control status. Because the case-control sample is not a random sample of the general population, standard statistical analysis of secondary phenotype data can yield very misleading results. SPREG implements valid and efficient statistical methods. (entry from Genetic Analysis Software) | gene, genetic, genomic, c | is listed by: Genetic Analysis Software | nlx_154660 | SCR_013261 | Secondary Phenotype REGression analysis | 2026-08-12 10:50:44 | 2 | ||||||||
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HEGESMA Resource Report Resource Website 10+ mentions |
HEGESMA (RRID:SCR_013304) | software resource, software application | Software application for performing genome scan meta-analysis, a quantitative method to identify genetic regions (bins) with consistently increased linkage score across multiple genome scans, and for testing the heterogeneity of the results of each bin across scans. The program provides as an output the average of ranks and three heterogeneity statistics, as well as corresponding significance levels. (entry from Genetic Analysis Software) | gene, genetic, genomic | is listed by: Genetic Analysis Software | nlx_154396 | SCR_013304 | HEterogeneity and GEnome Search Meta Analysis | 2026-08-12 10:50:45 | 17 | |||||||||
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PyPop Resource Report Resource Website 50+ mentions |
PyPop (RRID:SCR_013425) | PyPop | software resource, software application | Open-source software pipeline for population genomics. Designed for processing genotype and allele data and running population genetic analyses, including conformity to Hardy-Weinberg expectations; tests for balancing or directional selection; estimates of haplotype frequencies and measures and tests of significance for linkage disequilibrium. | gene, genetic, genomic, python, ms-windows, (98/2000/xp), linux, macos | is listed by: Genetic Analysis Software | DOI:10.3389/fimmu.2024.1378512 | Free, Available for download, Freely available | nlx_154559 | https://github.com/alexlancaster/pypop, https://zenodo.org/records/19170148 | SCR_013425 | , Python for Population Genomics, PYthon for POPulation genetics | 2026-08-12 10:50:46 | 74 | |||||
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MDR Resource Report Resource Website 10+ mentions |
MDR (RRID:SCR_013427) | MDR | software resource, software application | Software application that is a data mining strategy for detecting and characterizing nonlinear interactions among discrete attributes (e.g. SNPs, smoking, gender, etc.) that are predictive of a discrete outcome (e.g. case-control status). The MDR software combines attribute selection, attribute construction and classification with cross-validation to provide a powerful approach to modeling interactions. (entry from Genetic Analysis Software) | gene, genetic, genomic |
is listed by: Genetic Analysis Software is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) |
nlx_154096 | http://www.nitrc.org/projects/mdr | SCR_013427 | Multifactor Dimensionality Reduction | 2026-08-12 10:50:48 | 39 | |||||||
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ANTMAP Resource Report Resource Website 10+ mentions |
ANTMAP (RRID:SCR_013426) | ANTMAP | software resource, software application | Software application based on the Ant Colony Optimization to solve the special case of the traveling salesman problem of ordering markers when the number of loci is large. ANYMAP performs segregation test, linkage grouping and locus ordering, and constructs a linkage map rapidly. (entry from Genetic Analysis Software) | gene, genetic, genomic, java, ms-windows, macos, linux, unix, solaris | is listed by: Genetic Analysis Software | nlx_154226 | SCR_013426 | 2026-08-12 10:50:47 | 21 | |||||||||
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Statistics Calculator Resource Report Resource Website 10+ mentions |
Statistics Calculator (RRID:SCR_013827) | software resource, software application | A set of many statistics calculators, including a confidence interval calculator. | statistics, calculator, confidence interval calculator | Free, Available to the research community | SCR_013827 | 2026-08-12 10:50:52 | 12 | |||||||||||
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GRIDQTL Resource Report Resource Website 10+ mentions |
GRIDQTL (RRID:SCR_013397) | GRIDQTL | software resource, software application | Publicly available Web-based application that can perform QTL mapping on a variety of population types. GridQTL will extend the functionality of QTLExpress by adding new and advanced approaches for modelling QTL analysis in simple and complex populations. These new methods will be available on a Grid system that will offer flexible workflow management, resource allocation, data persistence, detached execution of simulations and the scalability required for the increase in data volume, data sources and complexity required by the new models. (entry from Genetic Analysis Software) | gene, genetic, genomic, web-based | is listed by: Genetic Analysis Software | Public | nlx_154215 | SCR_013397 | 2026-08-12 10:50:46 | 28 | ||||||||
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Opticon Monitor Software Resource Report Resource Website 10+ mentions |
Opticon Monitor Software (RRID:SCR_014241) | software resource, software application | Software which controls all operations in the experimental setup, data acquisition and monitoring, and data analysis stages of the Bio-Rad Opticon 2 system. In the experimental setup stage, setup and programming operations are accessed from the Master File window. The master file consists of a plate file, which specifies the parameters of the plate, and a protocol file, which specifies the experimental conditions. After a plate and a protocol setup have been created or selected, a run can be initiated, which begins the data acquisition and monitoring stage. Data collection can be monitored during the run by viewing a plot of fluorescence intensity vs. cycle number. In the data analysis stage, data can be analyzed using the Quantitation, Melting Curve, and/or Analysis windows. The window used depends on the type of data being collected. | machine software, operational control, software application, experimental setup, data acquisition, data monitoring, data analysis | has parent organization: Bio-Rad | Must log in to access software download | http://www.bio-rad.com/webroot/web/pdf/lsr/literature/Bulletin_07218.pdf | SCR_014241 | 2026-08-12 10:50:55 | 14 | |||||||||
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Writefull Resource Report Resource Website 1+ mentions |
Writefull (RRID:SCR_014006) | software resource, software application | A software application which provides feedback on writing, wording, and frequency of text by checking against databases of correct language. Users can highlight a chunk of text and use Writefull to see how often the specific text appears in different language databases. Writefull can also offer synonyms and suggestions for wording. Writefull is supported by numerous writing tools which include MS Word and Gmail. | software application, editing tool, language tool |
uses: Google Scholar is used by: Harvard University; Cambridge; United States is used by: University College London; London; United Kingdom is used by: University of Oxford; Oxford; United Kingdom is used by: Columbia University; New York; USA is used by: Cornell University; New York; USA is used by: University of Toronto; Ontario; Canada is used by: University of Melbourne; Victoria; Australia is used by: Australian National University; Acton; Australia is listed by: Connected Researchers is related to: Connected Researchers |
Account required, Fee (for different packages) | SCR_014006 | 2026-08-12 10:50:53 | 1 | ||||||||||
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KLayout Resource Report Resource Website 10+ mentions |
KLayout (RRID:SCR_014644) | software resource, software application | A GDS and OASIS file viewer editor that has file overlay and file creation capabilities. It features include: layer grouping, flexible rulers, image overlay, partial editing functions, and external library support. | file viewer, file overlay, image overlay, file edit, gds, oasis, software application | Free, Live project, Available for download | http://www.softpedia.com/get/Others/Miscellaneous/KLayout.shtml#ixzz4MVcsvgH9 | SCR_014644 | KLayout - High Performance Layout Viewer And Editor | 2026-08-12 10:51:08 | 29 | |||||||||
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Brain Decoder Toolbox Resource Report Resource Website 1+ mentions |
Brain Decoder Toolbox (RRID:SCR_013150) | BDTB | software resource, software application | Software that performs ?decoding? of brain activity, by learning the difference between brain activity patterns among conditions and then classifying the brain activity based on the learning results. BDTB is a set of Matlab functions. BDTB is OS-independent. | analyze, japanese, linux, macos, matlab, microsoft, magnetic resonance, posix/unix-like, windows |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: ATR; Kyoto; Japan |
PMID:15852014 | GNU General Public Licence | nlx_155709 | http://www.nitrc.org/projects/bdtb | SCR_013150 | BrainDecoderToolbox | 2026-08-12 10:50:43 | 2 | |||||
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TRIMHAP Resource Report Resource Website |
TRIMHAP (RRID:SCR_013512) | TRIMHAP | software resource, software application | Software application for linkage disequilibrium mapping based on ancestral founder haplotypes. Method uses haplotype data from general pedigrees. (entry from Genetic Analysis Software) | gene, genetic, genomic, fortran, unix | is listed by: Genetic Analysis Software | nlx_154683 | SCR_013512 | TRIMmed-HAPlotype (previously named HAL: Haplotype ALgorithm) | 2026-08-12 10:50:47 | 0 | ||||||||
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Evaluation Instruments Bank Resource Report Resource Website 1+ mentions |
Evaluation Instruments Bank (RRID:SCR_013246) | material resource, assessment test provider | The EIB provides assessment tests for substance disorder related clinical instruments that are freely available. Details regarding copyright and/or possible use restrictions are specified for each instrument. Instruments are generally classed according to the intervention field they are designed to be used in (treatment, prevention, or harm reduction), though some instruments may be usable in more than one field. | drug, drug intervention, drug of abuse, assessment, harm reduction, human, adult human, early adult human, prevention, substance-related disorder, treatment | has parent organization: European Monitoring Centre for Drugs and Drug Addiction | nif-0000-24171 | SCR_013246 | EIB | 2026-08-12 10:50:44 | 3 | |||||||||
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GLFSINGLE/GLFTRIO/GLFMULTIPLES Resource Report Resource Website 1+ mentions |
GLFSINGLE/GLFTRIO/GLFMULTIPLES (RRID:SCR_013128) | software resource, software application | Software application that is a GLF-based variant caller for next-generation sequencing data. It takes one/three/multiple GLF format genotype likelihood files as input and generates a VCF-format set of variant calls as output. (entry from Genetic Analysis Software) | gene, genetic, genomic | is listed by: Genetic Analysis Software | nlx_154358 | SCR_013128 | 2026-08-12 10:50:43 | 1 | ||||||||||
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Pointless Resource Report Resource Website 100+ mentions |
Pointless (RRID:SCR_014218) | software resource, software application | Pointless scores all the possible Laue groups consistent with the crystal class, which is based on cell dimension restraints, by matching potential symmetry equivalent reflections. For chiral systems, the Laue group uniquely implies the point group then checks sets of reflections which may be systematically absent to suggest a possible spacegroup. There is also a check for lattice centering, i.e., a check for whole classes of reflections having essentially zero intensity, including a check for obverse/inverse twinning in rhombohedral systems. Pointless is also capable of converting XDS, Scalepack, SHELX or SAINT formats to MTZ. | laue group, space group, crystal structure, data reduction | is affiliated with: iMosflm | DOI:10.1107/S090744491003982X | SCR_014218 | 2026-08-12 10:50:58 | 134 | ||||||||||
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GGSD Resource Report Resource Website |
GGSD (RRID:SCR_013129) | software resource, software application | Web-based, relational database driven data management software package for the management of large scale genetic studies. (entry from Genetic Analysis Software) | gene, genetic, genomic, java, php, perl, web-based | is listed by: Genetic Analysis Software | nlx_154355 | SCR_013129 | Generic Genetic Studies Database | 2026-08-12 10:50:44 | 0 | |||||||||
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NeuroGL Resource Report Resource Website |
NeuroGL (RRID:SCR_013803) | software resource, software application | A software application which is used to create navigable visuals of neural structures. The current version of the program accepts NeuroZoom ASCII files as input. Users can visit CNIC's online repository for a full list of free, available models. The current version of the software available is Version 1.2, last updated on July 13, 2004. | software application, visualization, neural structures, interactive |
is listed by: Computational Neurobiology and Imaging Center is related to: Computational Neurobiology and Imaging Center has parent organization: Icahn School of Medicine at Mount Sinai; New York; USA |
Free, Public | SCR_013803 | 2026-08-12 10:50:52 | 0 | ||||||||||
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TIFF Stack Sub-Sampler Resource Report Resource Website |
TIFF Stack Sub-Sampler (RRID:SCR_013804) | TSS | software resource, software application | A software application which reduces the number of voxels used to represent a volumetric dataset by means of subsampling, i.e., computes a smaller version of a given dataset. Stacks can be selected from the disk by point and click and users are free to specify the new dimensions as actual pixels or as a percent of the original dimensions. The current version is Version 1.0, last updated on February 10, 2003. | software application, TSS, minimize dataset |
is listed by: Computational Neurobiology and Imaging Center is related to: Computational Neurobiology and Imaging Center has parent organization: Icahn School of Medicine at Mount Sinai; New York; USA |
Free, Public | SCR_013804 | 2026-08-12 10:50:52 | 0 |
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