GORpipe: a query tool for working with sequence data based on a Genomic Ordered Relational (GOR) architecture.

Using CREATE to define materialized views create ##GWASsubset## = gor snp_gwas_results.gorz | where pval < 1.0e-4 and contains(phenotype,’cancer’) ; g or [##gwassubset##] | where pval < 1.0e-10 | prefix #2- A | join -snpsnps -f 100000 -rprefix B [##gwassubset##] | where not (A_phenotype = B_phenotype and A_pos = B_pos ) | rank 1 B_pval -o asc | where rank_B_pval < = 10 In other words, we form a join between all strongly significant cancer associations and other weakly significant associations within a 100kb distance.

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