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Revision as of 13:16, 14 April 2014
, 13:16, 14 April 2014→--kinSave
* If --kinxFile is not used, but --kinFile your.autosomal.Empirical.Kinship.gz --vcX are issued in a command line, then RAREMETALWORKER will look for a kinship X file named your.autosomal.Empirical.KinshipX.gz. If this file is still not found, a FATAL ERROR will occur.
* If --kinxFile is not used, but --kinFile your.autosomal.Empirical.Kinship.gz --vcX are issued in a command line, then RAREMETALWORKER will look for a kinship X file named your.autosomal.Empirical.KinshipX.gz. If this file is still not found, a FATAL ERROR will occur.
===--kinSave===
===--kinSave===
* This option must be used with --kinGeno.
* Issuing --kinSave will request [[RAREMETALWORKER]] to store the estimated GMR in a file named yourprefix.Empirical.Kinship.gz.
* If --vcX is also issued in the command line, then a separate file named yourprefix.Empirical.KinshipX.gz will be generated where the GRM of chromosome X is saved.
*For formats of the saved genomic relationship matrix, please refer to [[RAREMETALWORKER#Genomic_Relationship_Matrix_.28GRM.29 | '''format''']].
*For formats of the saved genomic relationship matrix, please refer to [[RAREMETALWORKER#Genomic_Relationship_Matrix_.28GRM.29 | '''format''']].
==Kinship Options==
==Kinship Options==
===--kinMaf===
===--kinMaf===
