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GSR: Simulator - FastSLINK
| Attribute | Value |
|---|---|
| Title | FastSLINK |
| Short Description | Simulation of Marker and Phenotype Data in Pedigrees |
| Long Description | FastSLINK permits simulation of marker and phenotype data in large pedigrees. Both power and significance can be evaluated. FastSLINK also supports locus heterogeneity. |
| Version | 3.0 |
| Project Started | 1990 |
| Last Release | 13 years, 5 months ago |
| Homepage | https://watson.hgen.pitt.edu/register/soft_doc.html |
| Citations | Ott J, Computer-simulation methods in human linkage analysis., Proc Natl Acad Sci U S A, 06-01-1989 [ Abstract, cited in PMC ] |
| GSR Certification | Accessibility |
| Last evaluated | 04-05-2018 (2200 days ago) |
| Attribute Category | Attribute |
|---|---|
| Target | |
| Type of Simulated Data | Genotype at Genetic Markers, Haploid DNA Sequence, Sex Chromosomes, |
| Variations | Biallelic Marker, Multiallelic Marker, Single Nucleotide Variation, Microsatellite, Missing Genotypes, |
| Simulation Method | Other (Elston-stewart method, adapted by dr. ott.), |
| Input | |
| Data Type | Allele Frequencies, Other (Observed pedigree structure, phenotypes and indication of which individuals are available), |
| File format | Other (Linkage), |
| Output | |
| Data Type | Genotype or Sequence (Option to include observed genotype), Phenotypic Trait, |
| Sequencing Reads | Other (Power and significance), |
| File Format | Linkage, Program Specific (Text format for summary statistics), |
| Sample Type | Sibpairs, Trios and Nuclear Families, Extended or Complete Pedigrees, |
| Phenotype | |
| Trait Type | Binary or Qualitative, Quantitative, |
| Determinants | Single Genetic Marker, Multiple Genetic Markers, Sex-linked, |
| Evolutionary Features | |
| Demographic | |
| Population Size Changes | |
| Gene Flow | |
| Spatiality | |
| Life Cycle | |
| Mating System | |
| Fecundity | |
| Natural Selection | |
| Determinant | |
| Models | |
| Recombination | Uniform, Varying Recombination Rates, |
| Mutation Models | Two-allele Mutation Model, |
| Events Allowed | |
| Other | |
| Interface | Command-line, |
| Development | |
| Tested Platforms | Windows, Mac OS X, Linux and Unix, Solaris, |
| Language | C or C++, |
| License | Other (User sign-up at http://watson.hgen.pitt.edu/register/ is required), |
| GSR Certification | Documentation, Application, |
Number of Primary Citations: 1
Number of Non-Primary Citations: 5
The following 5 publications are selected examples of applications that used FastSLINK.
2016
Peter B, Wijsman EM, Nato AQ Jr, Matsushita MM, Chapman KL, Stanaway IB, Wolff J, Oda K, Gabo VB, Raskind WH, Genetic Candidate Variants in Two Multigenerational Families with Childhood Apraxia of Speech., PLoS One, 01-01-2016 [Abstract]
Zou Q, The Generalized Relative Pairs IBD Distribution: Its Use in the Detection of Linkage., Front Public Health, 01-01-2016 [Abstract]
2015
Barral S, Vardarajan BN, Reyes-Dumeyer D, Faber KM, Bird TD, Tsuang D, Bennett DA, Rosenberg R, Boeve BF, Graff-Radford NR, Goate AM, et al., Genetic variants associated with susceptibility to psychosis in late-onset Alzheimer's disease families., Neurobiol Aging, 11-01-2015 [Abstract]
Barral S, Cheng R, Reitz C, Vardarajan B, Lee J, Kunkle B, Beecham G, Cantwell LS, Pericak-Vance MA, Farrer LA, Haines JL, et al., Linkage analyses in Caribbean Hispanic families identify novel loci associated with familial late-onset Alzheimer's disease., Alzheimers Dement, 12-01-2015 [Abstract]
2014
Garnai SJ, Huyghe JR, Reed DM, Scott KM, Liebmann JM, Boehnke M, Richards JE, Ritch R, Pawar H, Congenital cataracts: de novo gene conversion event in CRYBB2., Mol Vis, 01-01-2014 [Abstract]