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  • FCgene: genotype format converter  v.1.0.4FCgene is a free, open-source Format Converting tool for genotyped SNP data. FCgene can read and convert genotyped SNP data having format of the software: PLINK, SNPTEST and the genotype imputation tools MACH, IMPUTE, BEAGLE and BIMBAM. FCgene is ...
  • GTdb - Genotype Database  v.1.0GTdb - Modular genotype database for all markers. The database has core which captures information common to different variation measurements and extensions to method and instrument specific data.
  • Genotype inference  v.0.4.0Given low-density genotypes for pedigrees, and dense genotypes for some people in those pedigrees, computes high-density genotypes for some other people in those pedigrees. This reduces genotyping ...
  • KIR Genotype program  v.1.0KGP is a program that reveals the KIR (Killer-cell Immunoglobulin-like Receptors (KIR)) genotypic diversity within a dataset using binary coded KIR genotypic patterns generated by the presence and absence of 16 KIR genes on a diploid ...
  • UNPHASED  v.3.1.5UNPHASED is a small, simple, Java based application specially designed to offer users a versatile tool for performing genetic association analysis. This utility implements maximum-likelihood inference on haplotype and genotype effects while allowing ...
  • CoNIFER  v.0.1 AlphaCoNIFER, also knows as Copy Number Inference From Exome Reads is a Python-based tool that uses exome sequencing data to find copy number variants (CNVs) and genotype the copy-number of duplicated genes. As exome capture reactions are subject to ...
  • LDMgen  v.NewLDMgen is a small, easy to use, command prompt based application specially designed to offer users a tool to help you map the disease gene (including location and confidence interval) by using multisite genotype data of case-control studies. The ...
  • DrosophiLab  v.1.0DrosophiLab is a freeware program for Microsoft Windows which lets you simulate the genetics of fruit flies, Drosophila melanogaster. You use the supplied Chromosome Editor to create fruit flies with complete control over their genotype. You can then ...
  • Jenetics  v.0.7.0.0Jenetics is a Java based object oriented library of an Genetic Algorithm. The library offers a clear separation of the several concepts of the algorithm, e.g. Gene, Chromosome, Genotype, Phenotype, Population and FitnessFunction. for WindowsAll ...
  • ADMIXMAP  v.1.0A program to model admixture using marker genotype data. Please visit http://homepages.ed.ac.uk/pmckeigu/admixmap/index.html for more ...
  • BayesAss  v.1.0Inference of recent migration rates between populations using multi-locus marker genotype ...
  • Evoker  v.1.0Evoker is a graphical tool for plotting genotype intensity data in order to assess quality of genotype calls. It implements a compact, binary format which allows rapid access to data, even with hundreds of thousands of ...
  • Gftools  v.0.3A set of utilities to handle individual-level genotype data ...
  • Java Genetic Algorithm Library  v.0.8.1.0An object oriented library of an Genetic Algorithm, implemented in Java. Clear separation of the several concepts of the algorithm, e.g. Gene, Chromosome, Genotype, Phenotype, Population and Fitness Function. The fitness calculation is ...
  • OpenADAM  v.1.0openADAM is a web-based database management system for the large amount of genotype data generated from the Affymetrix GeneChip Mapping Array and Genome-Wide Human SNP Array ...
  • Pgenome  v.1.0PGenome, created in C++, contains several tools to analyze genotype frequencies, linkage disequilibrium, association of individual nucleotides and of genotypes and power calculations of minimal allelic and genotypic ...
  • Sibsim  v.2.1.3sibsim is designed to simulate either genotype and/or quantitative phenotype data in family structures in a modern, easy to use and highly scaleable way. sibsim is based on XML, completely written in C++ and published under the GNU General Public ...
  • TASSEL  v.rc.20120426TASSEL is a bioinformatics software package that can analyze diversity for sequences, SNPs, or SSRs. Genotype/phenotype associations can be carried out by GLM or a mixed model. Estimates distance and linkage disequilibrium ...
  • TIMDA  v.02For the necessity of analyzing enormous data generated from microarray experiments, we develop TIMDA. TIMDA consists of modules for image processing (IM), intermediate data conversion (IDC), genotype-calling (GC), LOH and ...
  • YFitter  v.0.2Yfitter is a program for assigning Y chromosome haplogroups to individuals sequenced at low coverage. It is designed to be used in a samtools/bcftools pipeline. Yfitter also supports haplogrouping using chip genotype ...
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