Users can upload ped and map files for analysis. Geological source
or breed name for each individual may be defined in a sample
information txt file. Please --download the example
datasets-- and check the
tutorial for detailed
information about the file formats. The PED, MAP, and sample
information files should be named with the suffix of
“.ped”, “.map”, and
“.txt”, respectively. Please
note, users can upload a file with a maximum size of 50MB. Datasets
larger than that should be uploaded via FTP or analyzed locally with
Step 2: Set the maximum number of presumed populations
Please set the maximum number
(K) of presumed populations. Genetic clustering will be performed under
the assumptions of from 1 to K (e.g. 1, 2, 3, ..., K) ancestries. The
optimal number of ancestries will have the minimum cross-validation
K should be an integer and slightly larger than the expected value (10
Step 3: Submit your job
Be notifled by email (Tick this box if you want to be notified by email
when the results are available)
if available,the title will be included in the subject of the
email and can be used as a way to identify your analysis.
You may bookmark the following web address and view your results
note that the results will be stored for 7 days.
Your job is currently running ... Please be patient.
Analysis successful ! The analysis is failed. Please verify the formats of your input files. In case that you are using the example datasets from FigShare (Version 1) , please note that the error is caused by a wrong sample_information file. We have updated this file in the lastest version of the examples (https://figshare.com/articles/dataset/AMBP_case_study/19390652).
Ancestral components for each cluster are displayed in the
following table (Ancestry_1: the first largest ancestral
population in the cluster; Avg. Q of Ancestry_1: the average
fraction of Ancestry_1 in the cluster; Ancestry_2: the second
largest ancestral population in the cluster; Avg. Q of
Ancestry_2: the average fraction of Ancestry_2 in the cluster).
Sample clustering based on genomic ancestral compositions.
Optimal number of ancestors determined by cross-validation.
Sample clustering based on principal component analysis.
Download all the results
Due to security concerns, the FTP functionality
is temporarily disabled. If the file size is larger than 50MB,
please use the standalone package