Closed Lee211 closed 4 years ago
Hi @Lee211,
Sorry that I missed this. We have that information in another file described in https://github.com/LieberInstitute/brainseq_phase2/tree/master/browser#snp-information. Let me check what's the best way for us to share it.
Best, Leonardo
Hi @Lee211,
In https://github.com/LieberInstitute/brainseq_phase2/commit/48edebd6b5c739aa313dcd74878af94fb7d1b756 I updated our documentation about these files. Also, the SNP annotation file is available here which has the columns newref
(lower case for newRef
) and newcount
(lower case for newCount
) which are the columns you wanted. You can match the different tables using the snp
column from the files in SupplementaryTable15_eQTL.tar.gz
and the SNP annotation table.
Best, Leo
i cannot find the snp allele information (i.e. A1/A2, or ref/alt) in the file called 'Genome wide significant eQTL snp-feature pairs'. Are these data available?