StructureSelector statistics

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StructureSelector specifications

Information


Unique identifier OMICS_22254
Name StructureSelector
Interface Web user interface
Restrictions to use None
Input data A single dataset resulting from standard STRUCTURE or ADMIXTURE fastStructure or other STRUCTURE-like program that produces Q-matrices; or multiple datasets, which can be put either in different subfolders or all together in one folder.
Input format ZIP
Output data A file containing the ‘best’ K for each estimator and a graphical representations for specific K.
Output format HTML,TSV
Computer skills Basic
Maintained Yes

Subtool


  • CLUMPAK

Maintainers


  • person_outline Yulong Li <>
  • person_outline Jin-Xian Liu <>

Additional information


http://lmme.qdio.ac.cn/StructureSelector/FAQ.html

Publication for StructureSelector

StructureSelector in publications

 (26)
PMCID: 5912765
PMID: 29684082
DOI: 10.1371/journal.pone.0195623

[…] 10 iterations at a 100,000 burning period and 200,000 markov chain monte carlo (mcmc) repeats []. values of k and δk were obtained by structure harvester []. best values for k were confirmed by the clumpak best k pipeline []., the pair-wise dissimilarity was estimated based on the jaccard similarity coefficient complement (dissimilarity = 1 –similarity) [,]. the phylogenetic tree […]

PMCID: 5868808
PMID: 29579060
DOI: 10.1371/journal.pone.0194646

[…] allele frequencies among populations. we used the locprior option, with the most likely k determined using evanno’s δk [,]. graphical representation of structure results were performed using clumpak (http://clumpak.tau.ac.il/index.html)., migration rates among populations were estimated using microsatellite data with migrate-n 3.6.5 []. we conducted searches using one long and four short […]

PMCID: 5863979
PMID: 29566001
DOI: 10.1371/journal.pone.0194201

[…] defined prior probabilities that each individual was an immigrant (v = 0.01–0.10) and incorporated information on the geographic origin of each sample before running the clustering analysis. we used clumpak [] to integrate results from multiple runs for different values of k and to implement methods for choosing k., to further explore the origins of individual whales, we assigned individuals […]

PMCID: 5805283
PMID: 29420597
DOI: 10.1371/journal.pone.0192386

[…] option. the initial burn-in length was set to 100000 followed by 100000 markov chain monte carlo (mcmc) iterations. to identify the appropriate number of k, structure harvester and online software clumpak were used [,]. a threshold membership coefficient of 70% was utilized to assign each individual to a specific group (k), and those that did not meet this criterion were considered as admixed. […]

PMCID: 5702509
PMID: 29209348
DOI: 10.3389/fpls.2017.01989

[…] 1 to 11. the estimate of the best k was calculated as described by evanno et al. () using structure harvester (ver. 0.6.92) software (earl and vonholdt, ). the clustering markov packager across k (clumpak, http://clumpak.tau.ac.il/index.html) program was used to simplify the comparison of clustering results from the structure programs across all 20 repetitions of k and to determine […]


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StructureSelector institution(s)
CAS Key Laboratory of Marine Ecology and Environmental Sciences, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, Shandong, China; Laboratory of Marine Ecology and Environmental Science, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China
StructureSelector funding source(s)
Supported by the AoShan Talents Program supported by Qingdao National Laboratory of Marine Science and Technology (No. 2015ASTP-ES05), the NSFC-Shandong Joint Fund for Marine Ecology and Environmental Sciences (No. U1606404) and a grant from the National Natural Science Foundation of China (No. 41676137).

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