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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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GENEPOOL Resource Report Resource Website 10+ mentions |
GENEPOOL (RRID:SCR_009087) | GENEPOOL | software resource, software application | THIS RESOURCE IS NO LONGER IN SERVCE, documented September 22, 2016. Software application that provides analysis tools for the detection of shifts in relative allele frequency between pooled genomic DNA from cases and controls using SNP-based genotyping microarrays. GenePool supports genotyping platforms from Affymetrix and Illumina. | gene, genetic, genomic, c/c++/perl, linux, macos, (should compile on most unix systems with gcc) | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154104 | SCR_009087 | 2026-02-14 02:07:13 | 48 | ||||||||
|
ANALYZE Resource Report Resource Website 1000+ mentions |
ANALYZE (RRID:SCR_009120) | ANALYZE | software resource, software application | A set of useful accessory programs to the LINKAGE package. It simplifies the performance of a large array of parametric and nonparametric tests for linkage and association on data entered in LINKAGE format pedigree and parameter files. (entry from Genetic Analysis Software) | gene, genetic, genomic, pascal, unix, sunos, solaris, osf1 |
is listed by: Genetic Analysis Software is listed by: SoftCite |
nlx_154223 | SCR_009120 | 2026-02-14 02:07:13 | 1102 | |||||||||
|
EPISTACY Resource Report Resource Website 1+ mentions |
EPISTACY (RRID:SCR_009088) | EPISTACY | software resource, software application | Software application (entry from Genetic Analysis Software) | gene, genetic, genomic, sas | is listed by: Genetic Analysis Software | nlx_154105 | SCR_009088 | 2026-02-14 02:06:44 | 1 | |||||||||
|
R/QTL Resource Report Resource Website 500+ mentions |
R/QTL (RRID:SCR_009085) | R/QTL | software resource, software application | Software program for mapping quantitative trait loci in experimental crosses. (entry from Genetic Analysis Software) | gene, genetic, genomic, c and r, unix, ms-windows, macos |
is listed by: Genetic Analysis Software is listed by: Debian is listed by: OMICtools |
DOI:10.1093/bioinformatics/btg112 | OMICS_07093, nlx_154097 | https://sources.debian.org/src/r-cran-qtl/ | SCR_009085 | 2026-02-14 02:07:07 | 987 | |||||||
|
QUANTO Resource Report Resource Website 500+ mentions |
QUANTO (RRID:SCR_009084) | QUANTO | software resource, software application | Software program that computes sample size or power for association studies of genes, environmental factors, gene-environment interaction, or gene-gene interaction. Available study designs for a disease (binary) outcome include the unmatched case-control, matched case-control, case-sibling, case-parent, and case-only designs. Study designs for a quantitative tra it include independent individuals and case parent designs. Quanto is a 32-bit Windows application requiring Windows 95, 98, NT, 2000, ME or XP to run. The graphical user interface allows th e user to easily change the model and view the results without having to edit an input file and rerun the program for every model. The results of a session are stored to a log file. This log can be printed or saved to a file for reviewing at a later date. An option is included to create a text file of the log that can be imported into other documents. (entry from Genetic Analysis Software) | gene, genetic, genomic, c++, ms-windows, (98/nt/2000/..) |
is listed by: Genetic Analysis Software is listed by: SoftCite |
nlx_154095 | SCR_009084 | 2026-02-14 02:06:44 | 915 | |||||||||
|
BOTTLENECK Resource Report Resource Website 100+ mentions |
BOTTLENECK (RRID:SCR_009082) | BOTTLENECK | software resource, software application | Software application for detecting recent effective population size reductions from allele data frequencies (entry from Genetic Analysis Software) | gene, genetic, genomic, ms-windows, (95) | is listed by: Genetic Analysis Software | nlx_154093 | SCR_009082 | 2026-02-14 02:06:58 | 486 | |||||||||
|
SQTDT/SPDT Resource Report Resource Website |
SQTDT/SPDT (RRID:SCR_009080) | SQTDT/SPDT | software resource, software application | Software application for semiparametric family-based association (entry from Genetic Analysis Software) | gene, genetic, genomic, linux | is listed by: Genetic Analysis Software | nlx_154091 | SCR_009080 | 2026-02-14 02:06:44 | 0 | |||||||||
|
DGENE Resource Report Resource Website 1+ mentions |
DGENE (RRID:SCR_009158) | DGENE | software resource, software application | THIS RESOURCE IS NO LOGER IN SERVICE. Documented on May 16,2023. A simple dBASE III program for the management of pedigree and locus data. It permits easy extraction of genetic data for use with MENDEL and FISHER. (entry from Genetic Analysis Software) | gene, genetic, genomic, dbase iii, ms-dos | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LOGER IN SERVICE | nlx_154281 | SCR_009158 | 2026-02-14 02:07:08 | 5 | ||||||||
|
COPE Resource Report Resource Website 500+ mentions |
COPE (RRID:SCR_009153) | COPE | software resource, software application | Software application that includes a Java program for drawing pedigrees and a standardized system for pedigree storage. Unlike other existing pedigree programs, this software is particularly intended for epidemiologists in the sense that it allows customized automatic drawing of large numbers of pedigrees and remote and distributed consultation of pedigrees. (entry from Genetic Analysis Software) | gene, genetic, genomic, java |
is listed by: Genetic Analysis Software is parent organization of: COPE: Cytokines and Cells Online Pathfinder Encyclopaedia |
nlx_154274 | SCR_009153 | COllaborative Pedigree drawing Environment | 2026-02-14 02:06:59 | 841 | ||||||||
|
CHROMOSCAN Resource Report Resource Website 1+ mentions |
CHROMOSCAN (RRID:SCR_009151) | CHROMOSCAN | software resource, software application | THIS RESOURCE IS NO LONGER IN SERVCE, documented September 22, 2016. Software application that is an implementation of a genome-based scan statistic that detects genomic regions. | gene, genetic, genomic, java | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154270 | http://www.epidkardia.sph.umich.edu/software/chromoscan/ | SCR_009151 | 2026-02-14 02:06:45 | 2 | |||||||
|
CHIAMO Resource Report Resource Website 1+ mentions |
CHIAMO (RRID:SCR_009150) | CHIAMO | software resource, software application | Software application for calling genotypes from the Affymetrix 500K Mapping chip. The program allows for multiple cohorts which have potentially different intensity characteristics that can lead to elevated false-positive rates in genome-wide studies. The underlying model has a hierarchical structure that allows for correlation between the parameters of each cohort. The output files produced by CHIAMO feed directly into both the programs SNPTEST and IMPUTE. CHIAMO was used to call genotypes for the 7 genome-wide association studies carried out by the Wellcome Trust Case-Control Consortium (WTCCC). | gene, genetic, genomic | is listed by: Genetic Analysis Software | nlx_154269 | http://www.stats.ox.ac.uk/~marchini/software/gwas/chiamo.html | SCR_009150 | 2026-02-14 02:07:14 | 2 | ||||||||
|
CHECKMATRIX Resource Report Resource Website 1+ mentions |
CHECKMATRIX (RRID:SCR_009149) | CHECKMATRIX | software resource, software application | Software application that serves as a visualization tool to validate constructed genetic maps. CheckMatrix generates graphical genotypes and two-dimensional heat plots of pairwise scores. Visualization of regions with positive and negative linkage as well as of allele fraction per marker simplifies genetic map validation without applying statistical approaches. CheckMatrix works in conjunction with MadMapper and freely available at http://www.atgc.org/XLinkage/MadMapper/ (entry from Genetic Analysis Software) | gene, genetic, genomic, python | is listed by: Genetic Analysis Software | nlx_154268 | SCR_009149 | PY_MATRIX_D | 2026-02-14 02:06:59 | 9 | ||||||||
|
CFC Resource Report Resource Website |
CFC (RRID:SCR_009146) | CFC | software resource, software application | THIS RESOURCE IS NO LONGER IN SERVCE, documented September 22, 2016. General-purpose program for monitoring genetic diversity. CFC allows for several pedigree analyses such as: (1) computing inbreeding coefficients and relationships; (2) computing average relationships very quickly within and between specified groups of individuals; (3) computing average relatedness; (4) ancestral decomposition of the average or the individual inbreeding coefficient; (5) ancestral decomposition of the average coancestry; (6) optimizing matings to minimize the average inbreeding coefficients in the next generation; (7) computing founder equivalent, founder genome equivalent and effective number of non-founders; (8) computing numerator relationship matrix, its Cholesky decomposition and its inverse; (9) providing useful information on the structure of pedigrees. | gene, genetic, genomic, visual c++, ms-windows, (98/nt/xp) | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154264 | SCR_009146 | Inbreeding (F) and Coancestry, Contribution | 2026-02-14 02:07:14 | 0 | |||||||
|
CEPH2MAP Resource Report Resource Website |
CEPH2MAP (RRID:SCR_009144) | CEPH2MAP | software resource, software application | Software application developed from crimap v2.4 for use with the map suite of programs. (entry from Genetic Analysis Software) | gene, genetic, genomic, c | is listed by: Genetic Analysis Software | nlx_154263 | SCR_009144 | 2026-02-14 02:07:08 | 0 | |||||||||
|
EVOKER Resource Report Resource Website 1+ mentions |
EVOKER (RRID:SCR_009145) | EVOKER | software resource, software application | A graphical tool for visualizing genotype intensity data in order to assess genotype calls as part of quality control procedures for genome-wide association studies. It provides a solution to the computational and storage problems related to being able to work with the huge volumes of data generated by such projects by implementing a compact, binary format that allows rapid access to data, even with hundreds of thousands of observations. (entry from Genetic Analysis Software) | gene, genetic, genomic, java, perl | is listed by: Genetic Analysis Software | nlx_154305 | SCR_009145 | 2026-02-14 02:06:59 | 8 | |||||||||
|
CCREL Resource Report Resource Website |
CCREL (RRID:SCR_009142) | CCREL | software resource, software application | Software program for case-control genetic analysis that takes relatedness between individuals into account. It will perform single-marker and haplotypic tests, however it will only work with SNP or other biallelic markers. (entry from Genetic Analysis Software) | gene, genetic, genomic, r, perl, c, unix, linux, bio.tools |
is listed by: Genetic Analysis Software is listed by: bio.tools is listed by: Debian |
biotools:ccrel, nlx_154261 | https://bio.tools/ccrel | SCR_009142 | Case-Control association analysis with RELlated individuals | 2026-02-14 02:07:14 | 0 | |||||||
|
HAPAR Resource Report Resource Website |
HAPAR (RRID:SCR_009218) | HAPAR | software resource, software application | Software application to infer haplotype from genotype data. It uses the parsimony principle, i.e. try to find the minimum number of haplotypes that can reconstruct the input genotypes. (entry from Genetic Analysis Software) | gene, genetic, genomic, ms-window, unix, solaris | is listed by: Genetic Analysis Software | nlx_154373 | SCR_009218 | HAplotype inference by PARsimony | 2026-02-14 02:07:01 | 0 | ||||||||
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HAP 2 Resource Report Resource Website |
HAP 2 (RRID:SCR_009217) | HAP 2 | 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, c, ms-windows, unix, solaris, linux | is listed by: Genetic Analysis Software | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_154372 | SCR_009217 | HAPlotype analysis of polymorphic markers | 2026-02-14 02:07:10 | 0 | |||||||
|
GTOOL Resource Report Resource Website 10+ mentions |
GTOOL (RRID:SCR_009215) | GTOOL | software resource, software application | Software application for transforming sets of genotype data for use with the programs SNPTEST and IMPUTE. (entry from Genetic Analysis Software) | gene, genetic, genomic | is listed by: Genetic Analysis Software | nlx_154368 | SCR_009215 | 2026-02-14 02:07:15 | 42 | |||||||||
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GMCHECK Resource Report Resource Website |
GMCHECK (RRID:SCR_009213) | GMCHECK | software resource, software application | Software application that finds the posterior probabilities for data errors for genotypes and phenotypes in pedigree data (entry from Genetic Analysis Software) | gene, genetic, genomic, java | is listed by: Genetic Analysis Software | nlx_154362 | http://episun7.med.utah.edu/~alun/gmcheck/ | SCR_009213 | 2026-02-14 02:07:10 | 0 |
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