GWAS

Step 1 Data input

Users can upload ped, map, and phe files for the analysis. Please --download the example datasets-- and check the tutorial for detailed information about the file formats. The PED, MAP, and phenotype files should be named with the suffix of “.ped”,“.map”, and “.phe”, 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 the  standalone package.


Please upload the .ped file:

or select an uploaded file

or use an example dataset




Please upload the .map file:

or select an uploaded file

or use an example dataset




Please upload the .phe file:

or select an uploaded file

or use an example dataset



Step 2: 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 notification email and can be used as a way to identify your analysis.

Results

You may bookmark the following web address and view your results later. Please 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).


Top significant SNPs revealed by GWA analysis.


Manhattan plot of the marker statistical significance across the whole genome.





Deviations of the observed P-values from a uniform distribution.



Download all the results