search:

Advanced Search

support.sas.com
KNOWLEDGE BASE
SUPPORT
LEARNING CENTER
COMMUNITY

Product Documentation
>
SAS 9.2 Documentation

Print |
E-mail |
Bookmark |
Feedback

SAS/Genetics(TM) 9.2 User's Guide

Contents
About

Acknowledgments

Credits

Documentation
Software
Support Groups

Acknowledgments

Whats New in SAS/Genetics 9.2

Overview
Accommodating a New Data Format
ALLELE Procedure
BTL Procedure
GENESELECT Procedure
References

Introduction

Overview of SAS/Genetics Software
About This Book

Chapter Organization
Typographical Conventions
Options Used in Examples

Where to Turn for More Information

Online Help System
SAS Technical Support Services

Related SAS Software

Base SAS Software
SAS/GRAPH Software
SAS/IML Software
SAS/INSIGHT Software
SAS/STAT Software

The ALLELE Procedure

Overview: ALLELE Procedure
Getting Started: ALLELE Procedure

Example

Syntax: ALLELE Procedure

PROC ALLELE Statement
BY Statement
POP Statement
VAR Statement
WITH Statement

Details: ALLELE Procedure

Statistical Computations

Frequency Estimates
Measures of Marker Informativeness
Testing for Hardy-Weinberg Equilibrium
Linkage Disequilibrium (LD)
Population Structure

Missing Values
OUTSTAT= Data Set
Displayed Output
ODS Table Names

Examples: ALLELE Procedure

Using the NDATA= Option with Microsatellites
Computing Linkage Disequilibrium Measures for SNP Data

References

The BTL Procedure

Overview: BTL Procedure
Getting Started: BTL Procedure

Example

Syntax: BTL Procedure

PROC BTL Statement
BY Statement
CLASS Statement
MARKER Statement
MODEL Statement
PARMEST Statement
PARMS Statement
RANDOM Statement
REPEATED Statement
WEIGHT Statement

Details: BTL Procedure

Statistical Computations
Displayed Output
ODS Table Names

Example: BTL Procedure

Performing BTL Model Selection and Estimation

References

The CASECONTROL Procedure

Overview: CASECONTROL Procedure
Getting Started: CASECONTROL Procedure

Example

Syntax: CASECONTROL Procedure

PROC CASECONTROL Statement
BY Statement
STRATA Statement
TRAIT Statement
VAR Statement

Details: CASECONTROL Procedure

Statistical Computations
Missing Values
OUTSTAT= Data Set
Displayed Output
ODS Table Names

Examples: CASECONTROL Procedure

Performing Case-Control Tests on Multiallelic Markers
Analyzing Data in the Tall-Skinny Format
Producing Odds Ratios for Various Disease Models

References

The FAMILY Procedure

Overview: FAMILY Procedure
Getting Started: FAMILY Procedure

Example

Syntax: FAMILY Procedure

PROC FAMILY Statement
BY Statement
ID Statement
TRAIT Statement
VAR Statement
XLVAR Statement

Details: FAMILY Procedure

Statistical Computations
Creating Allelic Transmission Scores
Missing Values
DATA= Data Set
OUTQ= Data Set
OUTSTAT= Data Set
Displayed Output
ODS Table Names

Examples: FAMILY Procedure

Performing Tests with Missing Parental Data
Checking for Genotyping Errors
Using Allelic Transmission Scores for Association Tests

References

The GENESELECT Procedure

Overview: GENESELECT Procedure
Syntax: GENESELECT Procedure

PROC GENESELECT Statement
FREQ Statement
PERFORMANCE Statement
TRAIT Statement
VAR Statement
IMPORTANCE Statement
PARTIALDEP Statement
SAVE Statement
SCORE Statement

The HAPLOTYPE Procedure

Overview: HAPLOTYPE Procedure
Getting Started: HAPLOTYPE Procedure

Example

Syntax: HAPLOTYPE Procedure

PROC HAPLOTYPE Statement
BY Statement
ID Statement
TRAIT Statement
VAR Statement

Details: HAPLOTYPE Procedure

Statistical Computations
Missing Values
OUT= Data Set
Displayed Output
ODS Table Names

Examples: HAPLOTYPE Procedure

Estimating Three-Locus Haplotype Frequencies
Using Multiple Runs of the EM Algorithm
Testing for Linkage Disequilibrium
Testing for Marker-Trait Associations
Creating a Data Set for a Regression Model
Using the Tall-Skinny Data Format

References

The HTSNP Procedure

Overview: HTSNP Procedure
Getting Started: HTSNP Procedure

Example

Syntax: HTSNP Procedure

PROC HTSNP Statement
BY Statement
FREQ Statement
VAR Statement

Details: HTSNP Procedure

Statistical Computations
Search Algorithms
Missing Values
Displayed Output
ODS Table Names

Example: HTSNP Procedure

Using the HAPLOTYPE and HTSNP Procedures Together

References

The INBREED Procedure

Overview: INBREED Procedure
Getting Started: INBREED Procedure

The Format of the Input Data Set
Performing the Analysis

Syntax: INBREED Procedure

PROC INBREED Statement
BY Statement
CLASS Statement
GENDER Statement
MATINGS Statement
VAR Statement

Details: INBREED Procedure

Missing Values
DATA= Data Set
Computational Details
OUTCOV= Data Set
Displayed Output
ODS Table Names

Examples: INBREED Procedure

Monoecious Population Analysis
Pedigree Analysis
Pedigree Analysis with BY Groups

References

The PSMOOTH Procedure

Overview: PSMOOTH Procedure
Getting Started: PSMOOTH Procedure

Example

Syntax: PSMOOTH Procedure

PROC PSMOOTH Statement
BY Statement
ID Statement
VAR Statement

Details: PSMOOTH Procedure

Statistical Computations
Missing Values
OUT= Data Set

Example: PSMOOTH Procedure

Displaying Plot of PROC PSMOOTH Output Data Set

References

The TPLOT Macro

Overview: TPLOT Macro
Syntax: TPLOT Macro
Results

Plot
Menu Bar
Toolbar

Example: TPLOT Macro

Index here

Product	Release
SAS/Genetics	9.2

Type: Usage and Reference
Copyright Date: March 2008
Last Updated: 11Mar2008

SAS/Genetics 9.2 User's Guide

Contact Us | Sitemap | RSS Feeds | www.sas.com | Terms of Use & Legal Information | Privacy Statement