FastSLINK

Basic Package Attributes
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	8 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, June 1, 1989 [Abstract, cited in PMC ]
GSR Certification	Accessibility ✔Documentation ✔Application Support

Detailed Attributes
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,

The following 5 publications are selected examples of applications that used FastSLINK.

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, Jan. 1, 2016 [Abstract]
Zou Q, The Generalized Relative Pairs IBD Distribution: Its Use in the Detection of Linkage., Front Public Health, Jan. 1, 2016 [Abstract]

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, Nov. 1, 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, Dec. 1, 2015 [Abstract]

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, Jan. 1, 2014 [Abstract]