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METAL Command Reference (view source)

Revision as of 07:36, 25 March 2011

590 bytes added ,  07:36, 25 March 2011
→‎Genomic Control Correction of Input Statistics
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   EFFECTLABEL      [LABEL|log(LABEL)]          (default = 'EFFECT')
 
   EFFECTLABEL      [LABEL|log(LABEL)]          (default = 'EFFECT')
 
   FLIP
 
   FLIP
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Additional details on the [[METAL COLUMNCOUNTING|COLUMNCOUNTING]] and [[METAL EFFECTLABEL|EFFECTLABEL]] options are available.
    
=== Filtering Input Files ===
 
=== Filtering Input Files ===
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                     (available conditions are <, >, <=, >=, =, !=, IN)
 
                     (available conditions are <, >, <=, >=, =, !=, IN)
 
   REMOVEFILTERS
 
   REMOVEFILTERS
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Additional details on these options are [[METAL ADDFILTER|available]].
    
=== Sample Size Weighted Meta-analysis ===
 
=== Sample Size Weighted Meta-analysis ===
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   MINWEIGHT        [NUMBER]                    (default = 1.0)
 
   MINWEIGHT        [NUMBER]                    (default = 1.0)
   −
== Inverse Variance Weighted Meta-analysis ===
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=== Inverse Variance Weighted Meta-analysis ===
 
   STDERRLABEL      [LABEL]                    (default = 'STDERR')
 
   STDERRLABEL      [LABEL]                    (default = 'STDERR')
 
   SCHEME          [SAMPLESIZE|STDERR]        (default = SAMPLESIZE)
 
   SCHEME          [SAMPLESIZE|STDERR]        (default = SAMPLESIZE)
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   LABEL            [VARNAME] AS [HEADER]
 
   LABEL            [VARNAME] AS [HEADER]
   −
== Explicit Strand Information ===
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Additional details on these options are [[METAL CUSTOMVARIABLE|available]].
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=== Explicit Strand Information ===
 
   USESTRAND        [ON|OFF]                    (default = OFF)
 
   USESTRAND        [ON|OFF]                    (default = OFF)
 
   STRANDLABEL      [LABEL]                    (default = 'STRAND')
 
   STRANDLABEL      [LABEL]                    (default = 'STRAND')
    
=== Genomic Control Correction of Input Statistics ===
 
=== Genomic Control Correction of Input Statistics ===
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   GENOMICCONTROL  [ON|OFF|VALUE]             (default = OFF)
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   GENOMICCONTROL  [ON|OFF|VALUE|LIST snps.txt](default = OFF)
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Additional details on this option are [[METAL GENOMICCONTROL|available]].
    
=== General Analysis Control ===
 
=== General Analysis Control ===
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   ANALYZE          [HETEROGENEITY]
 
   ANALYZE          [HETEROGENEITY]
 
   CLEAR
 
   CLEAR
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Additional details on the [[METAL LOGPVALUE|LogPValue]] and [[METAL VERBOSE|Verbose]] commands are available.
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=== Script Control ===
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  SOURCE            [FILENAME]
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Additional details on this command are [[METAL SOURCE|available]].
Retrieved from "http://genome.sph.umich.edu/wiki/Special:MobileDiff/29...3133"

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