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Instructions

This program represents a tool for testing independence of SNP association signals using meta-analysis data

Here is an example dataset for SSSRAP webtool

Please select the input data type:

2x2 2-SNP haplotypes table:

  test SNP
top hit
  q1 q2
p1 X11 X12
p2 X21 X22

Notes:
p1, major allele frequency of top hit
p2, minor allele frequency of top hit
q1, major allele frequency of test SNP
q1, minor allele frequency of test SNP
X11, haplotype frequency of p1 and q1

Please enter the top hit information here:

NB: Always use adjusted beta expect for first phase, adjusted beta can be found in the results table

  markerID POS MAF BETA SE N
top_hit

Please enter information for possible dependent SNPs here:

NB: Always use adjusted beta expect for first phase, adjusted beta can be found in the results table

max 20 SNPs per run

  markerID POS MAF X11 beta SE N

SSS-RAP for batch use

Click here to download a version of SSS-RAP (R script) for batch use. Here is an example for the input file. Right click to download.

Copyright and Licence

This program is copyright (2012). Use is free under the terms of the SSS-RAP licence, but no liability is accepted for any costs or errors incurred by use of the software.

Any user wishing to obtain the code for their own use should contact epxjz@bris.ac.uk