Finds proxies if necessary
Usage
proxy_match(
vcf,
rsid,
bfile = NULL,
proxies = "yes",
tag_kb = 5000,
tag_nsnp = 5000,
tag_r2 = 0.6,
threads = 1,
rsidx = NULL,
dbfile = NULL
)Arguments
- vcf
vcf file name
- rsid
list of rs IDs
- bfile
ld reference panel (plink)
- proxies
="yes" If SNPs are absent then look for proxies (yes) or not (no). Can also mask all target SNPs and only return proxies (only), for testing purposes
- tag_kb
=5000 Proxy parameter
- tag_nsnp
=5000 Proxy parameter
- tag_r2
=0.6 Proxy parameter
- threads
Number of threads to use (=1)
- rsidx
Path to rsidx index
- dbfile
ld tag database (sqlite)