Closed Mahmedturk closed 2 years ago
Hi @Mahmedturk, The sample file contains one column without any header for all sample IDs that match the order in the bgen file. Can you have a check?
Thanks, Wei
We have just released a new version 1.0.0. It has computational efficiency improvements for both Step 1 and Step 2 for single-variant and set-based tests. We have created a new program github page https://github.com/saigegit/SAIGE with the documentation provided https://saigegit.github.io/SAIGE-doc/
The program will be maintained by multiple SAIGE developers there. Please feel free to try the version 1.0.0 and report issues if any.
Thanks! Wei
Hi, This is my first time doing the RSAIGE analyses, kindly excuse me if it's a basic question. After doing successfully step 1 on chromosome 22 i get the below error on step 2. Any help would be greatly appreciated.
Error in SPAGMMATtest(vcfFile = opt$vcfFile, vcfFileIndex = opt$vcfFileIndex, : ERROR! The number of samples specified in the sample file does not equal to the number of samples in the bgen file Execution halted