Online imputation

Step 1:Data input

Current species : {{edit.Name}}


Users can upload one or more vcf.gz files. The input files must be named ${chromosome_name}.vcf.gz, for example: {{vm.edit.speciesVcfName}}. Please check the list of chromosomes. 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 using the standalone package.


In upload....

Please upload the vcf file:

or select an uploaded file

or use an example dataset ({{vm.edit.speciesVcfName}})



Step 2:Imputation methods

Imputation Software

The default parameters will fulfill the needs of most users. Click here if you want to view or change the parameters.

Burnin

Iterations

Phase states

Imp states

Ne

Seed

Burnin

Main

Pdwt depth

Pbwt modulo

Init stattes

Ne

Format

Filters

GP

Missing Rate

MAF

Step 3: Submit your job

Be notified by email (Tick the 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).


Summary of imputed genotypes by chromosomes.


Missing rate of SNPs after filtering low quality imputed genotypes


Chromosomal LD pattern


Download all the results