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admixture.jl

Julia wrapper of the ADMIXTURE program for estimating ancestry

ashg-openmendelworkshop-2020-oct

OpenMendel tutorials for ASHG Workshop

bgen.jl

classicmendel

Official Mendel package distribution

codingstyle

Coding style guidelines for OpenMendel packages

geneticcounseling_ashg2019

Tutorials and data sets for ASHG 2019 workshop on Genetic Counseling.

geneticvariantbase.jl

haploadmixture.jl

langesymposium-programmingworkshop-20202022

OpenMendel tutorials for Lange's Symposium Programming Workshop

mendelaimselection.jl

This analysis option selects the SNPs that are most informative at predicting ancestry for your data — the best Ancestry Informative Markers (AIMs).

mendelbase.jl

MendelBase contains the base functions of OpenMendel.

mendelestimatefrequencies.jl

This analysis option calculates a likelihood-based estimate of allele frequencies.

mendelgametecompetition.jl

This analysis option implements a gamete competition analysis, which is a generalization of the TDT analysis.

mendelgenedropping.jl

This package performs gene dropping with several useful options for the output.

mendelgeneticcounseling.jl

This analysis option performs risk calculations for genetic counseling problems.

mendelgwas.jl

This package performs standard Genome-wide Association Studies.

mendeliht.jl

Iterative hard thresholding for l0 penalized regression

mendelimpute.jl

OpenMendel package for haplotyping and imputation

mendelkinship.jl

This analysis option computes kinship and other identity coefficients.

mendellocationscores.jl

This analysis option maps a trait via the method of Location Scores, i.e., multipoint linkage analysis.

mendelplots.jl

Julia package for plotting results from GWAS

mendelsearch.jl

MendelSearch is a program for function optimization. Search permits bounds and linear constraints to be imposed on parameters and, in statistical applications, computes asymptotic standard errors and correlations of parameter estimates.

mendeltwopointlinkage.jl

This analysis option performs two-point linkage analysis.

openadmixture.jl

openmendel.github.io

The main website for the OpenMendel project.

ordinalgwas.jl

Genome-wide association studies (GWAS) for ordered categorical phenotypes

ordinalmultinomialmodels.jl

ordered multinomial models

pgenfiles.jl

quasicopula.jl

A Flexible Quasi-Copula Distribution for Statistical Modeling

regressiontests

Collection of test cases for OpenMendel framework