群体结构推断软件集锦（更新于2020.03.20）

1.Structure

Data Type：SSR datasets，SNP datasets

Algorithm：EM，MM

Manual：http://web.stanford.edu/group/pritchardlab/structure_software/release_versions/v2.3.4/html/structure.html

Link：http://web.stanford.edu/group/pritchardlab/structure.html

Reference：

     PMC1461096(Genetics. 2000)

     PMC1462648(Genetics. 2003)

     10.1111/j.1471-8286.2007.01758.x(Molecular Ecology Notes,2007)

     10.1111/j.1755-0998.2009.02591.x(Molecular Ecology Resources,2009)

2.Admixture

Data Type：SNP datasets

program language：C++

Manual：https://gaworkshop.readthedocs.io/en/latest/contents/07_admixture/admixture.html

Link：http://software.genetics.ucla.edu/admixture/download.html

Reference：

    10.1101/gr.094052.109(Genome Research,2009)

    10.1007/s11222-009-9166-3(Statistics and Computing,2009)

3. fastStructure

Data Type：SNP datasets

program language：Python

Manual：http://rajanil.github.io/fastStructure/

Link：https://github.com/rajanil/fastStructure

Reference：10.1534/genetics.114.164350(Genetics,2014)

4.LEA(R Packages)

Data Type：SNP datasets,coding multiallelic marker data

program language：C

Manual：https://bioconductor.org/packages/release/bioc/vignettes/LEA/inst/doc/LEA.pdf

Link：https://bioconductor.org/packages/release/bioc/html/LEA.html

Reference：10.1111/2041-210X.12382(Methods in Ecology and Evolution,2015)

5.Pophelper（R Packages）

Data Type：any q-matrix output(from ADMIXTURE, FASTSTRUCTURE, STRUCTURE, TESS, BAPS etc.software)

program language：R

Manual：http://www.royfrancis.com/pophelper/articles/index.html

Link：https://github.com/royfrancis/pophelper

Reference：10.1111/1755-0998.12509 (Molecular Ecology Resources, 2016)

6.teraStructure

Data Type：SNP datasets

program language：C++

Manual：https://github.com/StoreyLab/terastructure/wiki

Link：https://github.com/StoreyLab/terastructure

Reference：10.1038/ng.3710(Nature Genetics,2017)

7.RADpainter & fineRADstructure

Data Type：SNP datasets

program language：C++

Manual：http://cichlid.gurdon.cam.ac.uk/fineRADstructure.html

Link：https://github.com/millanek/fineRADstructure

Reference：10.1093/molbev/msy023(Molecular Biology and Evolution,2018)