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==GREGOR==
==GREGOR==
'''GREGOR''' ('''_G_'''enomic '''_R'''egulatory '''E'''lements and '''G'''was '''O'''verlap algo'''R'''ithm) is a tool built to evaluate global enrichment of trait-associated variants in experimentally annotated epigenomic regulatory features.
'''GREGOR''' ('''G'''enomic '''R'''egulatory '''E'''lements and '''G'''was '''O'''verlap algo'''R'''ithm) is a tool built to evaluate global enrichment of trait-associated variants in experimentally annotated epigenomic regulatory features.
Because all reference data are version hg19, please make sure that your index SNP list and BED files are also version hg19.
Because all reference data are version hg19, please make sure that your index SNP list and BED files are also version hg19.
ownload the reference files from this link [http://csg.sph.umich.edu/GREGOR/ GREGOR Download].
ownload the reference files from this link [http://csg.sph.umich.edu/GREGOR/ GREGOR Download].
Reference files is created by populations(AFR, AMR, ASN, EUR, SAN) from 1000G data (Release date : May 21, 2011).
Reference files are created for the different population groups(AFR, AMR, ASN, EUR, SAN) from 1000G data (Release date : May 21, 2011).
If your LD r2 threshold equals or greater than 0.7, please download reference files from category: LD window size = 1MB; LD r2 ≥ 0.7.
If your LD r2 threshold equals or greater than 0.7, please download reference files from category: LD window size = 1MB; LD r2 ≥ 0.7.
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BATCHTYPE = local ## run jobs on local machine
BATCHTYPE = local ## run jobs on local machine
In the config file, there are several parameters to adjust:
In the config file, there are several parameters to adjust:
