Software
This page provides descriptions and distribution links for scientific software produced by Institute of Zoology staff. This software is distributed free for academic use.
KinInfor
KinInfor (Kinship Informativeness) is a Fortran program that calculates the informativeness of markers in inferring pairwise relatedness or relationships.
Read more about KinInfor by Jinliang Wang.
MER
The genetic relationships among individuals within populations play a pivotal role in quantitative genetics, conservation genetics and many areas of evolution and ecology. Such relationships can be easily estimated from the pedigree information. For natural populations, however, detailed knowledge of pedigree is usually unavailable. Genetic markers can be used, instead, to infer the relationships among individuals without pedigree information.
MER (Moment Estimate of Relatedness) can be used to estimate the 2- and 4-gene relatedness coefficients between individuals from codominant or dominant genetic markers.
Read more about MER by Jinliang Wang.
COLONY
COLONY is a Fortran program written by Jinliang Wang. It implements a maximum likelihood method to assign sibship and parentage jointly, using individual multilocus genotypes at a number of codominant or dominant marker loci. It can be used in estimating full- and half-sib relationships, assigning parentage, inferring mating system (polygamous/monogamous) and reproductive skew in both diploid and haplo-diploid species.
Read more about COLONY by Jinliang Wang.
Coancestry
COANCESTRY is a computer program that implements 7 methods to estimate the pairwise relatedness between individuals and 4 methods to estimate individual inbreeding coefficients, using individual genotypes at a set of marker loci.
Read more about Coancestry by Jinliang Wang.
MEAdmix
MEAdmix (Molecular Estimator of Admixture) is a Fortran program written by Jinliang Wang to estimate the admixture proportions and genetic drift using DNA sequence data.
Read more about MEAdmix by Jinliang Wang.
MLNE
MLNE is a program for calculating maximum likelihood estimates of effective population size (Ne) and migration rate from the observed temporal and spatial differences in marker allele frequencies.
Read more about MLNE by Jinliang Wang.
LEADMIX
LEADMIX is a Fortran program written by Jinliang Wang to estimate the admixture proportions and genetic drift using data on genetic markers.
Read more about LEADMIX by Jinliang Wang.
AgeStructure
AgeStructure is a computer program, written by Jinliang Wang, for estimating the generation interval, effective size, variances and covariances of lifetime number of offspring of an age structured population with overlapping generations.
Read more about AgeStructure by Jinliang Wang.
MicroErrorAnalyzer
MicroErrorAnalyzer is a computer program for analysing the genotyping errors of microsatellites in parentage exclusion analysis. It can be used for 3 main purposes. (1) Calculating the probabilities of Mendelian-inconsistent errors and Mendelian-consistent errors in parent-offspring (PO) dyads at a locus with a given set of allele frequencies and mistyping rates (i.e. null allele frequency, allelic dropout rate, and false allele rate). (2) Determining the probability distributions of the number of mismatches of PO and unrelated dyads at a set of markers with given allele frequencies and mistyping rates. (3) Estimating the mistyping rates of a set of markers given the observed numbers of mismatches among a number of known PO dyads.
Read more about MicroErrorAnalyzer by Jinliang Wang.
