Copy Number -log(Alpha) for Stopping Rule -log10(p-value) Cutoff Additional Bandwidth on Each Side of Tracks Adjustment Effects Alpha Annotation Chromosome Variable Annotation Label Variable Annotation Merge Variables Annotation Position Variable Annotation SAS Data Set Annotation Variables to Keep Annotation Variables to Keep in Output Data Set Annotation Variables to Retain in Output Data Set Bin Method Bin Summary Statistic By Variables Calculate the absolute value of the differences Center rows Chromosome Variable Class Variables Cluster significant Mean profiles Color Theme Color Variables Compute Pearson covariances instead of correlations Compute results for annotated rows only Control Levels Control Reference Value Control Set Summary Statistic Cumulative Proportion of Variation to Explain Data Set to Use for Filter Density Smoothing Bandwidth Computation Method Density Smoothing Bandwidth Multiplier Display detailed distribution statistics and histograms Display Format for Density Grid Points Display side-by-side box plots Display Standard Deviation versus Mean plots Exclude rows with missing physical position Experimental Design SAS Data Set Experimental Factor Variables File Containing Estimate Statements Filter to Include Annotation Rows Filter to Include Observations Filter to Include Rows Folder of Track Settings Files GenBank Accession Variable Gene Description Variable Gene or LocusLink ID Variable Gene Symbol Variable ID Variable ID Variables to Keep Include adjusted p-values in addition to -log10(p-values) Include p-values in addition to -log10(p-values) Include Standard Errors Include t-Statistics Input SAS Data Set Intensity Variables to Bin JMP Script Output file Name JMP Script Output File Name JSL Output File K for Circular B S Minor Arc Key Variable(s) to Merge with Input SAS Data Set Label Variable List every model fit List-Style Specification of Intensity Variables to Bin List-Style Specification of Variables List-Style Specification of Variables for Which to Display Distributions List-Style Specification of Variables to be Standardized List-Style Specification of Variables to Partition Intensity Values List-Style Specification of With Variables Maximum Depth of Recursion Maximum Number of Principal Components to Apply Means Control Value(s) Means Difference Set for Volcano Plots Means Standardization Method Merge Annotation into Residuals Data Set Merge Key Variables to Associate with Input SAS Data Set Minimum Segment Size Multiple Testing Method Negative Mean Intensity Maximum [<=0] Number of Density Grid Points Number of Markers in Each Bin Number of Permutations Number of the First Principal Component for VCA Numerical Parameter for Advanced Standardization Methods Organism Output Data Set Output Eigenvalues Data Set Output Experimental Design Data Set Output Folder Output experimental samples only Output Prefix Output Statistics Data Set Output Test Data Set Output Variance Components Data Set Overlay density estimates Perform log2 transform after standardization Perform LOH targeted subtraction Plot standardized residuals Position Variable Positive Mean Intensity Minimum [>=0] Probe or SNP ID Variable PROC GENESELECT Statement Options Sample Set(s) to Use for Subtraction Scale rows Separate and journal results by chromosome Server Output Directory Shifting Factor Shrink variances using Empirical Bayes SNP ID Variable Standardization Method Standardization Statistics Input SAS Data Set Standardize Standardized Residuals Output Data Set Name Study Subset Data Set to Use for Normalization Track Settings Files Type of Correlation Uniformly scale histograms in detail plots Uniformly scale y-axes in Volcano and Chromosome Position plots Uniformly scale y-axes in Volcano plots Variable Distinguishing Bivariate Observations Variables Variables By Which to Merge Annotation Data Variables By Which to Merge Filter Data Set Variables Defining Analysis Groups Variables Defining Blocks Variables Defining Control Sets Variables Defining Groups for Mean Processing Variables Defining the One-Way Classification Variables for Which to Display Distributions Variables to be Standardized Variables to Keep in Output or By Which to Merge Annotation Data Variables to Partition Intensity Values Variance Component Effects Width of Positional Bin With Variables