Newport iServer MicroServer iTHX-M Manuals

Manuals and User Guides for Newport iServer MicroServer iTHX-M. We have 1 Newport iServer MicroServer iTHX-M manual available for free PDF download: Operator's Manual

Newport iServer MicroServer iTHX-M Operator's Manual (414 pages)

Temperature + Humidity

Brand: Newport | Category: Measuring Instruments | Size: 12.96 MB

Table of Contents
3
Introduction

11
- About this Manual
  12
- Conventions Used in this Guide
  14
- Online Documentation
  16
- Technical Support
  17
CHAPTER 1 GTYPE Overview

21
- Gtype Analysis
  21
- Using Gtype with Gcos
  24
- Gtype Walkthrough
  27
- Mapping Analysis Workflow
  36
- Universal Tag Workflow
  52
CHAPTER 2 Getting Started

57
- Options for Using Gtype
  57
- Starting Gtype
  58
- User Interface Components
  62
- Data Tree
  65
- Shortcut Bar
  80
- Status Log
  84
CHAPTER 3 Working with Images

87
- Viewing Cell Intensity Images
  87
- Adjusting the Image Settings
  92
- Viewing Probe Cell Data
  97
- Viewing Probe Set Intensity Data
  100
- Bookmarks
  106
- Default Image Settings
  109
CHAPTER 4 Analyzing Cell Intensity Data

115
- Overview
  115
- Using the Analyze Dialog Box
  118
- Using the Data Tree
  122
- Using the Batch Analysis Window
  125
- Changing Algorithm Settings
  136
- Analysis Defaults
  143
CHAPTER 5 Mapping Analysis Window

147
- Overview
  147
- Features
  148
- Displaying Results in the Mapping Analysis Window
  149
- Mapping Analysis - Genotype Calls
  154
- Snp Table
  157
- Scatter Plots
  172
CHAPTER 6 Working with Mapping Data

189
CHAPTER 7 Universal Tag Window

261
- Overview
  262
- Tag Table
  264
CHAPTER 8 Probe Intensity Window

271
- Overview
  271
- Intensity Plot
  276
- Probe Intensity Table
  279
- Data Displayed for Mapping Arrays
  280
CHAPTER 9 Netaffx Annotations

285
- Overview
  285
- Downloading Netaffx Annotations
  287
- Selecting Annotations for Display
  292
- Setting the Advanced Options
  293
CHAPTER 10 Reports

299
- Overview
  300
- Working with Reports
  307
Appendix A Installing GTYPE Software

315
- Overview
  315
- Requirements
  315
- Installation
  316
- Selecting a Database
  321
- Installing Gtype Server Components in Gcos Server
  322
Appendix B MPAM Mapping Algorithm

327
- The Genechip® 10K Mapping Array
  327
- The Mpam Algorithm
  329
- Mpam Mapping Algorithm Settings
  339
MPAM Mapping Algorithm

327
Appendix C Dynamic Model Mapping Algorithm

345
Bayesian Robust Linear Model with Mahalanobis (BRLMM) Distance Classifier Algorithm

363
Appendix D Bayesian Robust Linear Model with

364
- Introduction
  364
- Normalization and Allele Summarization
  367
- Clustering Space Transformation
  368
- Calling Genotypes
  370
- Estimating Cluster Centers and Variances
  371
- Special Cases
  375
- Results
  377
- Discussion
  378
- Brlmm Mapping Algorithm Settings
  379
- Brlmm Ram Requirements
  381
- References
  383
  - Sample Mismatch Algorithm
    387
  - Filter Algorithms
    388
  - Index
    411

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Controller Measuring Instruments Receiver Industrial Equipment

Power Supply

More Newport Manuals

Newport iServer MicroServer iTHX-M Manuals

Newport iServer MicroServer iTHX-M Operator's Manual (414 pages)

Table of Contents

Introduction

CHAPTER 1 GTYPE Overview

CHAPTER 2 Getting Started

CHAPTER 3 Working with Images

CHAPTER 4 Analyzing Cell Intensity Data

CHAPTER 5 Mapping Analysis Window

CHAPTER 6 Working with Mapping Data

CHAPTER 7 Universal Tag Window

CHAPTER 8 Probe Intensity Window

CHAPTER 9 Netaffx Annotations

CHAPTER 10 Reports

Appendix A Installing GTYPE Software

Appendix B MPAM Mapping Algorithm

MPAM Mapping Algorithm

Appendix C Dynamic Model Mapping Algorithm

Bayesian Robust Linear Model with Mahalanobis (BRLMM) Distance Classifier Algorithm

Appendix D Bayesian Robust Linear Model with

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