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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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NOCOM Resource Report Resource Website 1+ mentions |
NOCOM (RRID:SCR_009310) | NOCOM | software application, software resource | Software application to estimate parameters for mixture of normal distributions (entry from Genetic Analysis Software) | gene, genetic, genomic, fortran, ms-dos, os2 | is listed by: Genetic Analysis Software | nlx_154500 | SCR_009310 | 2026-08-09 09:05:09 | 8 | |||||||||
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MAPDISTO Resource Report Resource Website 100+ mentions |
MAPDISTO (RRID:SCR_009275) | MAPDISTO | software application, software resource | 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 | 2026-08-09 09:05:08 | 116 | ||||||||
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MAP/MAP+/MAP+H/MAP2000 Resource Report Resource Website |
MAP/MAP+/MAP+H/MAP2000 (RRID:SCR_009272) | MAP/MAP+/MAP+H/MAP2000 | software application, software resource | Software application for multiple pairwise linkage analysis under interference (entry from Genetic Analysis Software) | gene, genetic, genomic, fortran, unix, sunos | is listed by: Genetic Analysis Software | nlx_154453 | SCR_009272 | (MAP+H is the radiation Hybrid module of MAP+) | 2026-08-09 09:05:08 | 0 | ||||||||
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MANTEL-STRUCT Resource Report Resource Website 1+ mentions |
MANTEL-STRUCT (RRID:SCR_009271) | MANTEL-STRUCT | software application, software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 16,2023. Software application that tests for population structure through the use of Mantel tests (entry from Genetic Analysis Software) | gene, genetic, genomic, ms-windows | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154451 | SCR_009271 | 2026-08-09 09:04:59 | 4 | ||||||||
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MULTISIM Resource Report Resource Website 10+ mentions |
MULTISIM (RRID:SCR_009308) | MULTISIM | software application, software resource | Software application to analyze the numbers of individuals that founded new populations following a bottleneck or founding event (entry from Genetic Analysis Software) | gene, genetic, genomic, ms-dos | is listed by: Genetic Analysis Software | nlx_154498 | SCR_009308 | 2026-08-09 09:05:16 | 13 | |||||||||
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MALDSOFT Resource Report Resource Website |
MALDSOFT (RRID:SCR_009269) | MALDSOFT | software application, software resource | Software program for admixture mapping of complex trait loci, using case-control data. The samples should come from a recently-admixed population; additional ''learning'' samples from the parental populations are helpful. (entry from Genetic Analysis Software) | gene, genetic, genomic, unix, linux, ms-windows, (dos/window...) | is listed by: Genetic Analysis Software | nlx_154449 | SCR_009269 | 2026-08-09 09:05:08 | 0 | |||||||||
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SAGE Resource Report Resource Website 1000+ mentions |
SAGE (RRID:SCR_009302) | SAGE | software application, software resource | Software application that provides researchers with the tools necessary for various types of statistical genetic analysis of human family data. (entry from Genetic Analysis Software) | gene, genetic, genomic, c, version 4.0 will be in c++, unix, (dec unix/solaris), ms-windows, (95/nt), linux |
is listed by: Genetic Analysis Software is listed by: SoftCite |
nlx_154606 | SCR_009302 | Statistical Analysis for Genetic Epidemiology | 2026-08-09 09:05:15 | 1037 | ||||||||
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PEDMANAGER Resource Report Resource Website |
PEDMANAGER (RRID:SCR_009300) | PEDMANAGER | software application, software resource | Software application (entry from Genetic Analysis Software) | gene, genetic, genomic, c, unix | is listed by: Genetic Analysis Software | nlx_154491 | SCR_009300 | 2026-08-09 09:05:09 | 0 | |||||||||
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LRTAE Resource Report Resource Website 1+ mentions |
LRTAE (RRID:SCR_009265) | LRTAE | software application, software resource | Software application to compute a likelihood ratio test statistic that increases power to detect genetic association in the presence of phenotype, genotype, and/or haplotype misclassification errors. In addition, the program produces asymptotically unbiased estimates of frequency parameters. (entry from Genetic Analysis Software) | gene, genetic, genomic, c, ms-windows, unix, solaris, linux | is listed by: Genetic Analysis Software | nlx_154443 | SCR_009265 | Likelihood Ratio Test Allowing for Errors | 2026-08-09 09:04:59 | 1 | ||||||||
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LOT Resource Report Resource Website |
LOT (RRID:SCR_009261) | LOT | software application, software resource | Software application (entry from Genetic Analysis Software) | gene, genetic, genomic, c++, ms-windows, linux, unix, solaris | is listed by: Genetic Analysis Software | nlx_154440 | http://peace.med.yale.edu/pub/LOT/ | SCR_009261 | Linkage analysis of Ordinal Traits | 2026-08-09 09:04:59 | 0 | |||||||
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E-Prime Resource Report Resource Website 100+ mentions |
E-Prime (RRID:SCR_009567) | E-Prime | software application, software resource | A suite of applications to fulfill all of your computerized experiment needs. Used by more than 15,000 professionals in the research community, E-Prime provides a truly easy-to-use environment for computerized experiment design, data collection, and analysis. E-Prime provides millisecond precision timing to ensure the accuracy of your data. E-Prime's flexibility to create simple to complex experiments is ideal for both novice and advanced users. The E-Prime suite of applications includes: * E-Studio ? Drag and drop graphical interface for experiment design * E-Basic ? Underlying scripting language of E-Prime * E-Run ? Once the experiment is generated with a single click, E-Run affords you the millisecond precision of stimulus presentation, synchronizations, and data collection. * E-Merge ? Merges your single session data files for group analysis * E-DataAid ? Data management utility * E-Recovery ? Recovers data files | experimental control, microsoft, magnetic resonance, visual basic, win32 (ms windows), windows, windows vista, windows xp |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is listed by: SoftCite |
nlx_155747 | http://www.nitrc.org/projects/eprime | SCR_009567 | E-Prime 2.0 | 2026-08-09 09:05:04 | 173 | |||||||
|
DWI/DTI Quality Control Tool: DTIPrep Resource Report Resource Website 1+ mentions |
DWI/DTI Quality Control Tool: DTIPrep (RRID:SCR_009562) | DTIPrep | software application, software resource | DTIPrep performs a Study-specific Protocol based automatic pipeline for DWI/DTI quality control and preparation. This is both a GUI and command line tool. The configurable pipeline includes image/diffusion information check, padding/Cropping of data, slice-wise, interlace-wise and gradient-wise intensity and motion check, head motion and Eddy current artifact correction, and DTI computing. | c++, linux, microsoft, magnetic resonance, nrrd, posix/unix-like, win32 (ms windows), windows, windows xp, dti | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | BSD License | nlx_155742 | http://www.nitrc.org/projects/dtiprep | SCR_009562 | 2026-08-09 09:05:04 | 4 | |||||||
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Mach2dat Resource Report Resource Website 10+ mentions |
Mach2dat (RRID:SCR_009599) | software application, software resource | Software that performs logistic regression, using imputed SNP dosage data and adjusting for covariates. | genetic association, genomic analysis, imaging genomics, snp, gene, imputation |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: MACH 1.0 has parent organization: University of Michigan; Ann Arbor; USA |
PMID:21058334 PMID:19715440 |
Free, Non-commercial, Acknowledgement requested | nlx_155801 | http://www.nitrc.org/projects/mach2dat | SCR_009599 | Mach2dat: Association with MACH output | 2026-08-09 09:05:14 | 40 | ||||||
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FiberViewerLight Resource Report Resource Website 1+ mentions |
FiberViewerLight (RRID:SCR_009476) | FiberViewerLight | software application, software resource | Light version of the existing tool Fiber Viewer. It includes every clustering methods of Fiber Viewer such as : Lenght, Gravity, Hausdorff, and Mean methods but also a Normalized Cut algorithm. As in the full version you can also display a plane on the fiber. This tool works faster than the full version due to simplified visualizations. | c++, linux, microsoft, magnetic resonance, posix/unix-like | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | BSD License | nlx_155623 | SCR_009476 | 2026-08-09 09:05:02 | 5 | ||||||||
|
MaCH-Admix Resource Report Resource Website 10+ mentions |
MaCH-Admix (RRID:SCR_009598) | software application, software resource | A genotype imputation software that is an extension to MaCH for faster and more flexible imputaiton, especially in admixed populations. It has incorporated a novel piecewise reference selection method to create reference panels tailored for target individual(s). This reference selection method generates better imputation quality in shorter running time. MaCH-Admix also separates model parameter estimation from imputation. The separation allows users to perform imputation with standard reference panels + pre-calibrated parameters in a data independent fashion. Alternatively, if one works with study-specific reference panels, or isolated target population, one has the option to simultaneously estimate these model parameters while performing imputation. MaCH-Admix has included many other useful options and supports VCF input files. All existing MaCH documentation applies to MaCH-Admix. | genomic analysis, imaging genomics, imputation, snp, gene, bio.tools |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is listed by: Debian is listed by: bio.tools has parent organization: University of North Carolina at Chapel Hill; North Carolina; USA |
PMID:23074066 | Free, Non-commercial, Acknowledgement requested | nlx_155800, biotools:mach-admix | http://www.nitrc.org/projects/mach-admix, https://bio.tools/mach-admix | SCR_009598 | MaCH-Admix: Genotype Imputation Software | 2026-08-09 09:05:04 | 18 | ||||||
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Fiber-tracking based on Finsler distance Resource Report Resource Website 1+ mentions |
Fiber-tracking based on Finsler distance (RRID:SCR_009475) | Fiber-tracking based on Finsler distance | software application, software resource | Software provided as a sub-project in the Finsler-tractography module: http://www.nitrc.org/projects/finslertract | diffusion mr fiber tracking, fiber tracking, magnetic resonance, tractography |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: Finsler tractography module for Slicer |
3D Slicer License | nlx_155622 | SCR_009475 | 2026-08-09 09:05:21 | 1 | ||||||||
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False Discovery Rate Weighted Resource Report Resource Website 1+ mentions |
False Discovery Rate Weighted (RRID:SCR_009473) | False Discovery Rate Weighted | software application, software resource | Simple and efficient, this application performs the Weighted False Discovery Rate procedure of Benjamini and Hochberg (1997) to correct for multiple testing. The good think is that you can test virtually any number of p-values (even millions) obtained with any test-statistics for any data set. The bonus is that you can assign a-priori weights to give a better chance to those variables that you deem important. In practice, this procedure is powerful only with a relatively small number of p-values. | magnetic resonance | is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) | nlx_155620 | SCR_009473 | 2026-08-09 09:05:02 | 1 | |||||||||
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LDDMM Resource Report Resource Website 10+ mentions |
LDDMM (RRID:SCR_009590) | LDDMM | software application, software resource | Software application which aims to assign metric distances on the space of anatomical images in Computational Anatomy thereby allowing for the direct comparison and quantization of morphometric changes in shapes. As part of these efforts the Center for Imaging Science at Johns Hopkins University developed techniques to not only compare images, but also to visualize the changes and differences. For additional information please refer to: Faisal Beg, Michael Miller, Alain Trouve, and Laurent Younes. Computing Large Deformation Metric Mappings via Geodesic Flows of Diffeomorphisms. International Journal of Computer Vision, Volume 61, Issue 2; February 2005. M.I. Miller and A. Trouve and L. Younes, On the Metrics and Euler-Lagrange Equations of Computational Anatomy, Annual Review of biomedical Engineering, 4:375-405, 2002. Software developed with support from National Institutes of Health NCRR grant P41 RR15241. | analyze, c++, console (text based), linux, microsoft, magnetic resonance, posix/unix-like, shape analysis, win32 (ms windows), windows |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: Johns Hopkins University; Maryland; USA |
nlx_155780 | http://www.nitrc.org/projects/lddmm-volume | SCR_009590 | Large Deformation Diffeomorphic Metric Mapping | 2026-08-09 09:05:24 | 31 | |||||||
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GMAC: A Matlab toolbox for spectral Granger causality analysis of fMRI data Resource Report Resource Website 1+ mentions |
GMAC: A Matlab toolbox for spectral Granger causality analysis of fMRI data (RRID:SCR_009581) | GMAC | software toolkit, software resource | Open-source software toolbox implemented multivariate spectral Granger Causality Analysis for studying brain connectivity using fMRI data. Available features are: fMRI data importing, network nodes definition, time series preprocessing, multivariate autoregressive modeling, spectral Granger causality indexes estimation, statistical significance assessment using surrogate data, network analysis and visualization of connectivity results. All functions are integrated into a graphical user interface developed in Matlab environment. Dependencies: Matlab, BIOSIG, SPM, MarsBar. | analyze, computational neuroscience, connectivity analysis, matlab, magnetic resonance, nifti, os independent, fmri, connectivity, granger causality, network analysis |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: Polytechnic University of Milan; Milan; Italy |
NIH Blueprint for Neuroscience Research | PMID:22925560 | nlx_155764 | http://www.nitrc.org/projects/gmac_2012 | http://selene.bioing.polimi.it/BBBlab/GMAC/ | SCR_009581 | Granger Multivariate Autoregressive Connectivity | 2026-08-09 09:05:04 | 1 | ||||
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TAGGER Resource Report Resource Website 50+ mentions |
TAGGER (RRID:SCR_009419) | software application, software resource | Software application (entry from Genetic Analysis Software) | gene, genetic, genomic, web-based |
is listed by: Genetic Analysis Software is listed by: SoftCite |
nlx_154669 | SCR_009419 | 2026-08-09 09:05:19 | 93 |
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