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Revision as of 22:10, 27 March 2013
, 22:10, 27 March 2013→Configuration File
Making calls on the X chromosome requires the user to specifty a PED file with sex information.
Making calls on the X chromosome requires the user to specifty a PED file with sex information.
* PED_INDEX = pedfile.ped
* PED_INDEX = pedfile.ped
== Example Configuration File ==
Example Configuration file where reference files are stored in /path/reference, and bams in path/freeze5
CHRS = 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22
BAM_INDEX = /path/freeze5/freeze5.bam.index
OUT_DIR = /path/freeze5/output
REF = /path/reference/hs37d5.fa
INDEL_PREFIX = /path/reference/1kg.pilot_release.merged.indels.sites.hg19
HM3_PREFIX = /path/reference/hapmap3_r3_b37_fwd.consensus.qc.poly
DBSNP_PREFIX = /path/reference/dbsnp_129_b37.rod
= Running =
= Running =
