Notification: due to the domain ownership issues, the access to this adress may be unstable, we recommend you to use https://lmme.ac.cn/StructureSelector/

StructureSelector

A Web Server To Select And Visualize Genetic Clusters Based On Multiple Methods

Select a zip file to Upload:




ADMIXTURE Examples: Single Dataset  or  Multiple Datasets


fastStructure Examples: Single Dataset  or  Multiple Datasets


STRUCTURE Examples: Single Dataset  or  Multiple Datasets

PopMap Examples: Single Dataset  or  Multiple Datasets

    


Options:


(seperated by ',', e.g. 20,20,20,20)


Computational:

Search method:

CLUMPP: default parameters are the LargeKGreedy algorithm, random input order, and 2000 repeats

Full search
Greedy
LargeKGreedy
Please choose the number of random input orders repeats:

MCL: threshold for similarity scores:

Default (dynamic)
User Defined: (0≤X<1) 

DISTRUCT: threshold for minimal cluster size:

Default
User Defined: (0≤X<1) 

Graphical:

Upload a file (optional): example
Upload a file (optional): example
Upload a file (optional): example
References »

Please Cite Our Paper:
Li YL, Liu JX (2018) StructureSelector: A web based software to select and visualize the optimal number of clusters using multiple methods.Molecular Ecology Resources, 18:176–177. [link]
References of the methods used (cite the corresponding methods you used):
Puechmaille SJ (2016) The program structure does not reliably recover the correct population structure when sampling is uneven: subsampling and new estimators alleviate the problem. Molecular Ecology Resources, 16:608–627. [link]

Kopelman et al. (2015) Clumpak: a program for identifying clustering modes and packaging population structure inferences across K. Molecular Ecology Resources, 15:1179–1191. [link]

Raj A, Stephens M, Pritchard JK (2014) fastSTRUCTURE: Variational Inference of Population Structure in Large SNP Data Sets. Genetics, 197:573-589. [link]

Evanno G, Regnaut S, Goudet J (2005) Detecting the number of clusters of individuals using the software structure: a simulation study. Molecular Ecology, 14:2611–2620. [link]

Pritchard JK, Stephens M, Donnelly P (2000) Inference of population structure using multilocus genotype data. Genetics, 155:945-959. [link]
Instructions »

  1. Compress the results of STRUCTURE-like program into zip format
  2. Select format and Upload the zip file
  3. Check the multiple option if the uploaded zip file contains multiple datasets
  4. Click Run!
NB:
Predefined groups (populations) are critical for Puechmaille method.
We recommed using Chrome browser in case of file checking issues.
PopMap file (the first column are individuals' name, the second column are the corresponded populations' name with no spaces, at least two populations or groups are needed) is required if the format is not STRUCTURE, or the predefined population options were not turned on in STRUCTURE. The order and number of individuals (the first column) are critical in PopMap (must be identical to the input Q or f file)
Please rename the files like ADMIXTURE (e.g. suffix is xxx.Q) if you upload other Q-matrix files
Further details please see FAQ

Any questions please contact me
Alternative Address: mirror1
Stable version: Stable
CAS Key Laboratory of Marine Ecology and Environmental Sciences
Institute of Oceanology, Chinese Academy of Sciences
7 Nanhai Road, Qingdao 266071
Shandong, China
P: (86) 0532-82898894