NATIONAL GENETICS REFERENCE LABORATORY (Manchester)


 Beatrix Nelson
 2 years ago
 Views:
Transcription
1 NATIONAL GENETICS REFERENCE LABORATORY (Manchester) MLPA analysis spreadsheets User Guide (updated October 2006) INTRODUCTION These spreadsheets are designed to assist with MLPA analysis using the kits available from MRCHolland (see website at The spreadsheets have been created in Microsoft Excel They are intended to simplify and streamline the process of analysing complex MLPA data. Input data for the spreadsheets may be either peak heights or peak areas. We do however recommend using peak heights. Comparisons between the peak heights and peak areas as measures of peak intensity has shown that the variance of peak area measurements are consistently higher than those for peak heights. This may be due to peak smoothing or the arbitrary cutoff of peaks that occurs in fragment analysis programs. Peak heights appear to be a simpler and therefore more consistent measure than peak area If you have any suggestions for improvements or modifications to the spreadsheets I would be grateful for any feedback. I can be contacted on DESCRIPTION OF SPREADSHEETS The spreadsheets have been split into five worksheets or pages RAW DATA This page is used for data entry. The cells on the page have been laid out in order to ensure minimal user intervention in transferring data from the fragment analysis package. For instance, output from a Genotyper or GeneMapper table, if correctly configured, can be pasted directly onto the cells indicated on the RAW DATA sheet. Fig 1 shows a RAW DATA sheet with data from the BRCA1 MLPA analysis spreadsheet. FIG1:
2 RESULTS as the title suggests this page displays the results of the analysis. The results from the test samples are analysed in comparison with a group of 5 normal controls (see the analysis section for a more detailed description of the method of analysis). The results are displayed in four principal ways (i) as dosage quotients (DQs) gridded for each ligation product versus each control ligation product (ii) graphically as mean dosage quotient for each ligation product (iii) as a likelihood probability and odds for each ligation product calculated for one of three hypotheses that the dosage is normal (2n copies), that the dosage is deleted (n copies) or that the dosage is duplicated (3n copies). Fig 2 shows the RESULTS sheet for some typical data entered into the BRCA1 MLPA spreadsheet. FIG2: CALC1 this sheet is simply used for calculation. The dosage data is first normalised on this sheet depending on the signal strength of the control amplimers. The deviations of each test sample ligation product are also calculated on this sheet relative to the mean and standard deviation of the 5 normal controls. CALC2 this sheet is also used for calculation. On this sheet the peak heights of each ligation product are divided by every other peak height within a sample to yield a ratio. This is then divided by the equivalent figure derived from the average of the five normal controls to yield the dosage quotients displayed on the RESULTS worksheet. REGRESSIONS this sheet is used to correct for any data that slopes relative to increasing molecular weight of the product. We have found artefacts in data causing slope due to differences in the electrokinetic injection sample loading process used in capillary electrophoresis. Data is normalised on this page using a linear regression model based on the degree of sloping of the control ligation products. In kits where there are no clear control ligation products e.g. Human Telomere MLPA kits P069/P070, then all ligation products are used in the calculation of slope.
3 METHOD OF ANALYSIS Background Analysis of dosage data can be problematic. Dosage data is quantitative yet in diagnostics we require a binary (Yes or No) answer. Analysis of dosage data by the use of dosage quotients (DQs) has been generally accepted as the standard method of analysis for several years. These worksheets analyse data to produce DQs in the standard way; however, they also incorporate two novel features of analysis to aid with interpretation. The first generates a likelihood probability of concordance with one of three hypotheses. Namely that a ligation product is present at either one two or three copies within the test sample. This figure is generated by comparing the test sample to a series of five normal controls. The controls are used to give a measure of the variability for each ligation product and allows the probability of deviation from expectation of the test sample to be estimated using the tstatistic. The second acts as a control for the overall quality of an individual test by measuring the standard deviation of the DQs obtained for all the control ligation products. If the standard deviation exceeds 0.1 then the sample is deemed to be of poor quality. Studies carried out by Dr Ruth Charlton, Regional Genetics Service, Leeds have shown that there is no overlap between DQs of deleted, normal and duplicated DQs of samples where the standard deviation of the control ligation products do not exceed 0.1. Thus excluding samples with higher degrees of variability substantially reduces the possibility of making an incorrect diagnosis. The analysis process Firstly the data is input on the RAW DATA worksheet. The format of this sheet has been to designed to facilitate the input of data directly from fragment analysis applications with the minimum user intervention e.g. Genotyper/Genemapper. This data is then presented in a more amenable format either at the top or bottom of the RESULTS worksheet. Each test and control sample s data is normalised by summing the total control peak height and dividing each ligation product s peak height by this figure. Carrying out this step is necessary in order for meaningful measurements of the variability between control samples to be measured. The control and test data is then equalised by dividing the normalised peak height by the mean peak height of all five controls. Both these stages are carried out on the CALC1 sheet. The next step that is carried out is to correct for sloping. This is achieved by carrying out a linear regression of all the equalised control products (or all equalised products if there are no control products) against the mean of the five control samples and correcting the equalised peak heights for the slope of any regression calculated according to the molecular weight of each peak. This stage is carried out on the REGRESSIONS sheet. Dosage quotients (DQs) are next calculated firstly by dividing each slope corrected ligation product peak height by each slope corrected control ligation product peak height for the average of all five control samples to create a matrix or grid of values. The same set of calculations are carried out for each of the test samples. These matrices are displayed on the CALC2 sheet. The dosage quotients are then calculated by dividing the test sample matrix by the control mean matrix. Dosage quotients (DQs) are displayed on the RESULTS sheet. The mean and standard deviation of each ligation product is then calculated for the five normal controls. The fit to each of the three hypotheses (deleted, normal or duplicated) is then calculated as follows. For the normal (2n copies) hypothesis, the difference of each test sample s ligation product normalised peak height from the mean of the control samples is calculated as a number of standard deviations. For the deleted hypothesis (n copies) the assumption is made that if the test sample is heterozygously deleted for a ligation product that the peak should
4 be halfheight and thus doubling the normalised peak height should therefore yield good fit with the control data. Thus doubled normalised peak heights are compared with the corresponding mean control amplimers to yield a difference as numbers of standard deviations for the deleted hypothesis. Finally, to test fit to the duplicated (3n) hypothesis the assumption is that if duplicated the test sample should be 1.5 times normal height thus multiplying the test sample normalised peak height by 2/3 should yield good fit with the control data. The three differences representing the three competing hypotheses are then converted into probabilities of deviation using the tstatistic. The precise probability for each amplimer is thus determined by two factors (i) the underlying variability in the batch of five normal controls for that particular ligation product and (ii) the size of the difference between the test sample for that ligation product and the control samples. Finally the relative likelihood of each of the three competing hypotheses is calculated for each ligation product as an odds ratio to indicate which hypothesis is more likely. For instance if the observed deviation from the normal hypothesis of the test sample is predicted to occur in 10% cases and the deviation from the deleted hypothesis is predicted to occur in 0.1% of cases then the relative odds of the normal to deleted hypotheses is 100:1 in favour of the normal hypothesis. Fig 3 illustrates the method used for calculating relative likelihoods. The three curves represent the relative probability distribution of dosage quotient for a given ligation product for each of the hypotheses, n deleted, 2n normal, 3n duplicated. The probability distribution is calculated in practice by the tstatistic. In the illustrated example the measured DQ of 0.9 equates to a probability of this being a normal result of 0.40, a probability of being a deleted result of and a probability of being a duplicated result of Dividing the Normal probability by the Deleted probability yields an odds ratio of 444:1 and dividing the Normal by the Duplicated probability yields an odds ratio of 667:1. Fig 3: p n 2n 3n DQ DQ = 0.9; p(2n) = 0.40 p(n) = ; p(3n) = Odds Norm:Del = 444:1 Odds Norm:Dup = 667:1 USE OF AND INTERPRETATION OF DATA ON THE WORKSHEETS The spreadsheet may be started by simply opening the file in Excel or double clicking the file icon in Windows Explorer. Depending on the levels of Macro Security set on your workstation you may or may not be informed that the spreadsheet contains macros and given the opportunity to enable or disable them but if macros are enabled a small dialog box is presented to the user (see Fig 4). The user must then enter both their name and corresponding laboratory worksheet number in order to proceed with analysis. The user name and Worksheet number are then entered on the worksheet within locked cells for audit purposes. This feature can be bypassed if preferred as some spreadsheets still function normally with macros disabled, however it is important to note that some do not e.g. P069 and P070 Human Telomeres. Any spreadsheets where macros need to be enabled in order for the spreadsheet to function normally will state this in the Release Notes. Should you need to
5 change the Macro security setting to allow macros to run, this can be done as follows in MS Excel 2003 FIG 4: On the Tools menu, click Options. Click the Security tab. Under Macro Security, click Macro Security. Click the Security Level tab, and then select the security level you want to use Medium is recommended, Data may now be copied and pasted directly from a Genotyper or equivalent output table in Excel format onto the RAW DATA sheet. The yellow cells indicate the cell(s) to select when pasting data. Fig 5 illustrates the appearance of the RAW DATA sheet prior to entering data. FIG 5: The spreadsheets must have five normal controls in order to function correctly. Once data has been pasted into position the Cross Ref column can be used to ensure that the data has been pasted into the sheet in the correct order provided the pasted data also includes data labels.
6 Fig 6 illustrates some data showing the concordance between the LABEL 1 field from the pasted data and the CROSS REF field. FIG 6: Space is allocated for a deletion or positive mutation control. Although this is not essential for the spreadsheet to function properly we strongly recommend that at least one positive control is run with each batch of samples. The data entry form is configured to accept up to 10 test samples. Once the test samples have been entered onto the RAW DATA sheet the results may be visualised by clicking on the RESULTS tab. On the RESULTS sheet, the control and test sample raw data are represented at the top of the sheet. Further down the sheet the analysed data are presented with the deletion control displayed first followed by up to 10 test samples. To the left of each sample s analysed data is a set of cells in which the sample name/lab no (from the raw data sheet), user and worksheet number (as entered in the dialog box when the worksheet was opened) is displayed for record keeping purposes. Beneath the worksheet information is a cell labelled Int QC Stand Dev. The cell directly below will either be coloured green if the sample quality is judged as good or red if it is judged poor. Sample quality is estimated by measuring the standard deviation of all the test ligation products measured against each other. As outlined previously retrospective analysis of MLPA data has shown that samples with control standard deviations less than 0.1 show no overlap between normal, duplicated and deleted ranges (Dr Ruth Charlton). Fig 7a illustrates the appearance of a typical sample where the data quality has been judged to be poor. FIG 7a: In worksheets where there are no control ligation products e.g. P069 and P070 Human telomeres, any cells that have been excluded from the quality control calculation due to them being possibly deleted or duplicated are listed in the cell below the data quality cell. If no cells have been excluded i.e. none have been judged as potentially deleted/duplicated the text Omitted;None appears.
7 FIG 7b: To the right of this sample information, the results are presented in a tabular format. For each sample, the upper rows are a series of dosage quotients gridded out for each ligation product (control and test) horizontally versus each control ligation product vertically. These cells are conditionally formatted to highlight deleted/duplicated and aberrant results. The actual settings that have been set for the conditional formats are given to the right of the raw data and may vary depending on the spreadsheet but typical ranges are as follows: Normal DQ Deleted DQ Duplicated DQ Equivocal DQ & Fig 8 illustrates a test sample showing a section of DQ results from a sample. The majority of DQs fall into the normal range and have a white background. A patch of three ligation products (BRCA1 Exons 1A, 1B and 2) all have reduced DQs within the deleted range of and are shaded aqua (ringed). A single DQ measurement, that between the control ligation product C11p13 and C12p12 lies in the equivocal range and is shaded a cream colour. Fig 8: Beneath the gridded DQ data lie (typically) two rows labelled in blue type above three rows labelled in green type. These rows hold the probabilistic analysis of the sample s mean DQ result for each ligation product. The green rows contain absolute probabilities measured by the tstatistic of the difference between the observed mean DQ for that ligation product and the expected DQ as estimated from the panel of 5 normal controls for each of the possible dosages (normal, deleted and duplicated). A 60% probability in the row for the normal hypothesis indicates that a random normal sample would be expected to deviate by at least this amount in 60% of tests. These cells are also conditionally formatted to highlight abnormal or equivocal results. The precise limits may vary from spreadsheet to spreadsheet but a key is given to the right of the control data at the top of the RESULTS sheet. The blue rows contain pairwise comparisons between the relative probabilities for the alternative hypotheses given as an odds ratio. With good quality data the odds ratios although varying should clearly favour one hypothesis over another. If the normal i.e. 2n hypothesis is clearly favoured (i.e. an odds ratio of >=20:1 for normal) the cell is conditionally formatted to have a green background. A clear odds ratio in favour of an abnormal hypothesis (i.e. an odds ration of >=1:20 in favour of a deleted or duplicated hypothesis) gives a cell with a red background. Any odds ratio giving equivocal results is highlighted with a cream background.
8 Figure 9 illustrates some typical results. Most of the odds ratios for the shown ligation products strongly favour the normal hypothesis and are consequently shaded in with a green backround. However the ligation product for BRCA1 Ex 13 is showing high DQs, consequently the fit is better to the duplicated hypothesis than either the normal or deleted hypotheses. Comparing the relative probabilities of fit to the duplicated and normal hypotheses the relative likelihood is calculated as 146:1 in favour of the sample being duplicated than the result being a normal outlier experienced by chance. Fig 9: The spreadsheets also incorporate a graphical representation of the results in the form of a histogram. This is located to the right of each test sample on the RESULTS sheet. Fig 10 illustrates a histogram from the HNPCC MLPA spreadsheet summarising the mean DQ data. This particular sample gave normal odds ratios for all ligation products except that for hmlh1 exon 2 which appeared to be deleted. This was subsequently confirmed by further analysis. FIG 10: INTERNAL QUALITY CONTROL Internal quality control is an important consideration for all diagnostic laboratories. Although the extra tiers of analysis given in the spreadsheets assist in the analysis of MLPA dosage data, the meaning and significance of some results will still remain a matter of professional judgement. The precise limits of what is an acceptable result must remain the responsibility of each laboratory to determine, however what follows are guidelines that have been found to be useful locally. 1) In order to be an acceptable result the Quality value (standard deviation of the control ligation products) should have a value of <=0.1. Samples with a Quality value exceeding 0.1 should be rejected. This condition applies to all categories of results and takes precedence over other quality criteria. 2) If all the odds ratios are for the normal hypothesis with >= 20:1 odds then the sample can be judged to be normal. 3) If two or more contiguous ligation products favour a deleted or duplicated hypothesis with >= 1:20 odds then the sample can be judged to be abnormal provided the remaining ligation products give odds ratios for the normal hypothesis of >= 20:1 odds. It still remains good
9 practice to confirm any mutations by repeating the analysis on a replicate MLPA analysis or on an affected first degree relative 4) If a single ligation product gives a >= 1:20 odds ratio in favour of deletion/duplication then further evidence must be obtained to confirm this result. Firstly the sample should be sequenced to establish that there are no mutations present beneath the ligation product hybridisation sites (this has been a frequently cause of a ligation product which appears deleted). Secondly the deletion/duplication should either (i) be confirmed using a separate assay e.g. long PCR, dosage PCR (ii) be confirmed on a separate DNA sample (not just a new replicate MLPA assay) or (iii) be confirmed on an affected first degree relative. 5) Where a sample otherwise appears normal yet the odds ratios for normality drop below >= 20:1 for some test ligation products this can be accepted to be a normal result provided (i) no one normal odds ratio drops below 5:1 in favour of normality (ii) that contiguous exons are not involved (iii) that no more than 10% of test ligation products are involved (iv) that none of the mean DQs falls into the transitional range ( or ). Please note that in the presence of a deletion the normal:duplication comparison is meaningless and will yield equivocal odds the same applies for the normal:deletion comparison for a duplicated sample. SPREADSHEETS FOR NEW MLPA ASSAYS If there is an MLPA assay in use in your laboratory for which you would like us to design a spreadsheet please contact me by at CONFIGURATION OF EXISTING SPREADSHEETS If there is an existing spreadsheet for which the data entry page is not compatible with your fragment analysis output, I can usually quite simply alter these to suit your requirements. In order to do this please to me at a sample of your data which you would like to import directly into the spreadsheets MODIFICATIONS TO EXISTING PROBE SETS MRCHolland review their kits and often change the probe combinations in response to their customer demand. If you notice that this has occurred and the currently available spreadsheet will no longer analyse the data please let me know by at as I can usually make minor modifications quite easily. ACKNOWLEDGEMENTS The quality control measure using the standard deviation of the control ligation products was developed by Dr Ruth Charlton, Regional Genetics Service, Leeds
INSTRUCTIONS FOR CREATING NGRL (Manchester) MLPA ANALYSIS SPREADSHEETS
INSTRUCTIONS FOR CREATING NGRL (Manchester) MLPA ANALYSIS SPREADSHEETS Background These instructions have been made available in order to allow current users of the MLPA spreadsheets available from download
More informationUsing Excel (Microsoft Office 2007 Version) for Graphical Analysis of Data
Using Excel (Microsoft Office 2007 Version) for Graphical Analysis of Data Introduction In several upcoming labs, a primary goal will be to determine the mathematical relationship between two variable
More informationModule 4 (Effect of Alcohol on Worms): Data Analysis
Module 4 (Effect of Alcohol on Worms): Data Analysis Michael Dunn Capuchino High School Introduction In this exercise, you will first process the timelapse data you collected. Then, you will cull (remove)
More informationHow To Run Statistical Tests in Excel
How To Run Statistical Tests in Excel Microsoft Excel is your best tool for storing and manipulating data, calculating basic descriptive statistics such as means and standard deviations, and conducting
More informationWorking with Excel in Origin
Working with Excel in Origin Limitations When Working with Excel in Origin To plot your workbook data in Origin, you must have Excel version 7 (Microsoft Office 95) or later installed on your computer
More informationMicrosoft Access Rollup Procedure for Microsoft Office 2007. 2. Click on Blank Database and name it something appropriate.
Microsoft Access Rollup Procedure for Microsoft Office 2007 Note: You will need tax form information in an existing Excel spreadsheet prior to beginning this tutorial. 1. Start Microsoft access 2007. 2.
More informationMaking Visio Diagrams Come Alive with Data
Making Visio Diagrams Come Alive with Data An Information Commons Workshop Making Visio Diagrams Come Alive with Data Page Workshop Why Add Data to A Diagram? Here are comparisons of a flow chart with
More informationMINITAB ASSISTANT WHITE PAPER
MINITAB ASSISTANT WHITE PAPER This paper explains the research conducted by Minitab statisticians to develop the methods and data checks used in the Assistant in Minitab 17 Statistical Software. OneWay
More informationNCSS Statistical Software Principal Components Regression. In ordinary least squares, the regression coefficients are estimated using the formula ( )
Chapter 340 Principal Components Regression Introduction is a technique for analyzing multiple regression data that suffer from multicollinearity. When multicollinearity occurs, least squares estimates
More informationStatistical Analysis Using Gnumeric
Statistical Analysis Using Gnumeric There are many software packages that will analyse data. For casual analysis, a spreadsheet may be an appropriate tool. Popular spreadsheets include Microsoft Excel,
More informationIBM SPSS Statistics for Beginners for Windows
ISS, NEWCASTLE UNIVERSITY IBM SPSS Statistics for Beginners for Windows A Training Manual for Beginners Dr. S. T. Kometa A Training Manual for Beginners Contents 1 Aims and Objectives... 3 1.1 Learning
More informationData Analysis Software
Data Analysis Software for VISION, BioCAD 700E, SPRINT, and INTEGRAL Workstations Version 3 Series Software Getting Started Guide DRAFT August 10, 2001 2:47 pm DASgsg_Title.fm Copyright 1998, 2001, Applied
More informationExcel Tutorial. Bio 150B Excel Tutorial 1
Bio 15B Excel Tutorial 1 Excel Tutorial As part of your laboratory writeups and reports during this semester you will be required to collect and present data in an appropriate format. To organize and
More informationAppendix 2.1 Tabular and Graphical Methods Using Excel
Appendix 2.1 Tabular and Graphical Methods Using Excel 1 Appendix 2.1 Tabular and Graphical Methods Using Excel The instructions in this section begin by describing the entry of data into an Excel spreadsheet.
More informationEXCEL Tutorial: How to use EXCEL for Graphs and Calculations.
EXCEL Tutorial: How to use EXCEL for Graphs and Calculations. Excel is powerful tool and can make your life easier if you are proficient in using it. You will need to use Excel to complete most of your
More informationHow to Excel with CUFS Part 2 Excel 2010
How to Excel with CUFS Part 2 Excel 2010 Course Manual Finance Training Contents 1. Working with multiple worksheets 1.1 Inserting new worksheets 3 1.2 Deleting sheets 3 1.3 Moving and copying Excel worksheets
More informationSECTION 21: OVERVIEW SECTION 22: FREQUENCY DISTRIBUTIONS
SECTION 21: OVERVIEW Chapter 2 Describing, Exploring and Comparing Data 19 In this chapter, we will use the capabilities of Excel to help us look more carefully at sets of data. We can do this by reorganizing
More informationCREATING EXCEL PIVOT TABLES AND PIVOT CHARTS FOR LIBRARY QUESTIONNAIRE RESULTS
CREATING EXCEL PIVOT TABLES AND PIVOT CHARTS FOR LIBRARY QUESTIONNAIRE RESULTS An Excel Pivot Table is an interactive table that summarizes large amounts of data. It allows the user to view and manipulate
More informationTechnology StepbyStep Using StatCrunch
Technology StepbyStep Using StatCrunch Section 1.3 Simple Random Sampling 1. Select Data, highlight Simulate Data, then highlight Discrete Uniform. 2. Fill in the following window with the appropriate
More informationMicrosoft Excel Tutorial
Microsoft Excel Tutorial by Dr. James E. Parks Department of Physics and Astronomy 401 Nielsen Physics Building The University of Tennessee Knoxville, Tennessee 379961200 Copyright August, 2000 by James
More informationMinitab Guide. This packet contains: A Friendly Guide to Minitab. Minitab StepByStep
Minitab Guide This packet contains: A Friendly Guide to Minitab An introduction to Minitab; including basic Minitab functions, how to create sets of data, and how to create and edit graphs of different
More informationThere are six different windows that can be opened when using SPSS. The following will give a description of each of them.
SPSS Basics Tutorial 1: SPSS Windows There are six different windows that can be opened when using SPSS. The following will give a description of each of them. The Data Editor The Data Editor is a spreadsheet
More informationStepbyStep Guide to BiParental Linkage Mapping WHITE PAPER
StepbyStep Guide to BiParental Linkage Mapping WHITE PAPER JMP Genomics StepbyStep Guide to BiParental Linkage Mapping Introduction JMP Genomics offers several tools for the creation of linkage maps
More informationSPSS Manual for Introductory Applied Statistics: A Variable Approach
SPSS Manual for Introductory Applied Statistics: A Variable Approach John Gabrosek Department of Statistics Grand Valley State University Allendale, MI USA August 2013 2 Copyright 2013 John Gabrosek. All
More informationGeoGebra Statistics and Probability
GeoGebra Statistics and Probability Project Maths Development Team 2013 www.projectmaths.ie Page 1 of 24 Index Activity Topic Page 1 Introduction GeoGebra Statistics 3 2 To calculate the Sum, Mean, Count,
More informationUsing Excel for descriptive statistics
FACT SHEET Using Excel for descriptive statistics Introduction Biologists no longer routinely plot graphs by hand or rely on calculators to carry out difficult and tedious statistical calculations. These
More informationExcel 2007. Getting Started The Excel Window u v w. Microsoft QUICK Source
Microsoft QUICK Source Excel 2007 Getting Started The Excel Window u v w x y z { u Quick Access Toolbar contains shortcuts for the most commonly used tools. v Microsoft Office Button contains common file
More informationAbstract. For notes detailing the changes in each release, see the MySQL for Excel Release Notes. For legal information, see the Legal Notices.
MySQL for Excel Abstract This is the MySQL for Excel Reference Manual. It documents MySQL for Excel 1.3 through 1.3.6. Much of the documentation also applies to the previous 1.2 series. For notes detailing
More informationSequencing Analysis Software Version 5.1
Applied Biosystems DNA Sequencing Analysis Software Sequencing Analysis Software Version 5.1 The Applied Biosystems DNA Sequencing Analysis Software v5.1 is designed to analyze, display, edit, save, and
More informationXPost: Excel Workbooks for the Postestimation Interpretation of Regression Models for Categorical Dependent Variables
XPost: Excel Workbooks for the Postestimation Interpretation of Regression Models for Categorical Dependent Variables Contents Simon Cheng hscheng@indiana.edu php.indiana.edu/~hscheng/ J. Scott Long jslong@indiana.edu
More informationt Tests in Excel The Excel Statistical Master By Mark Harmon Copyright 2011 Mark Harmon
ttests in Excel By Mark Harmon Copyright 2011 Mark Harmon No part of this publication may be reproduced or distributed without the express permission of the author. mark@excelmasterseries.com www.excelmasterseries.com
More informationUsing Microsoft Excel to Plot and Analyze Kinetic Data
Entering and Formatting Data Using Microsoft Excel to Plot and Analyze Kinetic Data Open Excel. Set up the spreadsheet page (Sheet 1) so that anyone who reads it will understand the page (Figure 1). Type
More informationEngineering Problem Solving and Excel. EGN 1006 Introduction to Engineering
Engineering Problem Solving and Excel EGN 1006 Introduction to Engineering Mathematical Solution Procedures Commonly Used in Engineering Analysis Data Analysis Techniques (Statistics) Curve Fitting techniques
More informationHow to use MS Excel to regenerate a report from the Report Editor
How to use MS Excel to regenerate a report from the Report Editor Summary This article describes how to create COMPASS reports with Microsoft Excel. When completed, Excel worksheets and/or charts are available
More informationSetting your session preferences
What is Aspen? 7 Basic Steps 1 Setting your session preferences 2 Building the simulation 3 Entering the simulation environment 4 Using the workbook 5 Installing Unit Operations 6 Run Your Simulation 7
More informationNotes on Excel Forecasting Tools. Data Table, Scenario Manager, Goal Seek, & Solver
Notes on Excel Forecasting Tools Data Table, Scenario Manager, Goal Seek, & Solver 20012002 1 Contents Overview...1 Data Table Scenario Manager Goal Seek Solver Examples Data Table...2 Scenario Manager...8
More informationBusiness Objects Version 5 : Introduction
Business Objects Version 5 : Introduction Page 1 TABLE OF CONTENTS Introduction About Business Objects Changing Your Password Retrieving PreDefined Reports Formatting Your Report Using the Slice and Dice
More informationEarned Value User s Guide
ENTC 419 Project Management Earned Value User s Guide Jacob Terkelsen Project Manager Digerati Group Table of Contents TABLE OF CONTENTS... 2 INTRODUCTION... 3 REQUIREMENTS... 3 LAYOUT... 4 IMPLEMENTATION...
More informationCreating a Participants Mailing and/or Contact List:
Creating a Participants Mailing and/or Contact List: The Limited Query function allows a staff member to retrieve (query) certain information from the Mediated Services system. This information is from
More information1. Math symbols Operation Symbol Example Order
Excel 2 Microsoft Excel 2013 Mercer County Library System Brian M. Hughes, County Executive Excel s Order of Calculation 1. Math symbols Operation Symbol Example Order Parentheses ( ) =(4+2)*8 1st Exponents
More informationCreate a Poster Using Publisher
Contents 1. Introduction 1. Starting Publisher 2. Create a Poster Template 5. Aligning your images and text 7. Apply a background 12. Add text to your poster 14. Add pictures to your poster 17. Add graphs
More informationExcel Charts & Graphs
MAX 201 Spring 2008 Assignment #6: Charts & Graphs; Modifying Data Due at the beginning of class on March 18 th Introduction This assignment introduces the charting and graphing capabilities of SPSS and
More informationCDOT Monumentation Sheets
CDOT Monumentation Sheets This document describes the process used to assemble a Right of Way Monumentation Sheet. An InRoads XML report is used to display the required data from the geometry project.
More information1.5 MONITOR FOR FMS 6 USER GUIDE
1.5 MONITOR FOR FMS 6 USER GUIDE 38 Introduction Monitor for FMS6 V1.2 is an upgrade to the previous version of Monitor. The new software is written for 32bit operating systems only and can therefore
More informationExcel Reports and Macros
Excel Reports and Macros Within Microsoft Excel it is possible to create a macro. This is a set of commands that Excel follows to automatically make certain changes to data in a spreadsheet. By adding
More informationCall Centre Helper  Forecasting Excel Template
Call Centre Helper  Forecasting Excel Template This is a monthly forecaster, and to use it you need to have at least 24 months of data available to you. Using the Forecaster Open the spreadsheet and enable
More informationDesigning a Worksheet with Excel
Designing a Worksheet with Excel Introduction Microsoft Office Excel 00 offers several tools that make your worksheets look attractive and professional. Without formatting, a worksheet can look confusing
More informationFigure 1. An embedded chart on a worksheet.
8. Excel Charts and Analysis ToolPak Charts, also known as graphs, have been an integral part of spreadsheets since the early days of Lotus 123. Charting features have improved significantly over the
More informationTutorial 2: Using Excel in Data Analysis
Tutorial 2: Using Excel in Data Analysis This tutorial guide addresses several issues particularly relevant in the context of the level 1 Physics lab sessions at Durham: organising your work sheet neatly,
More informationData Analysis on the ABI PRISM 7700 Sequence Detection System: Setting Baselines and Thresholds. Overview. Data Analysis Tutorial
Data Analysis on the ABI PRISM 7700 Sequence Detection System: Setting Baselines and Thresholds Overview In order for accuracy and precision to be optimal, the assay must be properly evaluated and a few
More informationValidation parameters: An introduction to measures of
Validation parameters: An introduction to measures of test accuracy Types of tests All tests are fundamentally quantitative Sometimes we use the quantitative result directly However, it is often necessary
More informationCD Appendix A3 Excel Troubleshooting and Detailed. Instructions for Office 1997, 2000, XP, and 2003
CD Appendix A3 Excel Troubleshooting and Detailed Instructions for Office 1997, 2000, XP, and 2003 Before using this appendix please read CD Appendixes A1. If problems persist use this appendix to get
More informationUsing Excel in Research. Hui Bian Office for Faculty Excellence
Using Excel in Research Hui Bian Office for Faculty Excellence Data entry in Excel Directly type information into the cells Enter data using Form Command: File > Options 2 Data entry in Excel Tool bar:
More informationData Analysis Tools. Tools for Summarizing Data
Data Analysis Tools This section of the notes is meant to introduce you to many of the tools that are provided by Excel under the Tools/Data Analysis menu item. If your computer does not have that tool
More information1.5 MONITOR. Schools Accountancy Team INTRODUCTION
1.5 MONITOR Schools Accountancy Team INTRODUCTION The Monitor software allows an extract showing the current financial position taken from FMS at any time that the user requires. This extract can be saved
More informationRealtime PCR: Understanding C t
APPLICATION NOTE RealTime PCR Realtime PCR: Understanding C t Realtime PCR, also called quantitative PCR or qpcr, can provide a simple and elegant method for determining the amount of a target sequence
More informationWelcome to Signature s WebBased Reporting
Version 3 Welcome to Signature s WebBased Reporting With the use of webbased reporting, analysis, and benchmarking tools, Signature offers guaranteed training solutions comprised of three critical components:
More information2. Simple Linear Regression
Research methods  II 3 2. Simple Linear Regression Simple linear regression is a technique in parametric statistics that is commonly used for analyzing mean response of a variable Y which changes according
More informationUsing SPSS, Chapter 2: Descriptive Statistics
1 Using SPSS, Chapter 2: Descriptive Statistics Chapters 2.1 & 2.2 Descriptive Statistics 2 Mean, Standard Deviation, Variance, Range, Minimum, Maximum 2 Mean, Median, Mode, Standard Deviation, Variance,
More informationCJA 20. Automated Billing Program Attorney Training Guide EXCEL BILLING FOR CJA CASES. Page 1
CJA 20 Automated Billing Program Attorney Training Guide EXCEL BILLING FOR CJA CASES Page 1 NOTES ABOUT MICROSOFT EXCEL Microsoft Excel was selected as the program to drive this billing program because
More informationInformation Literacy Program
Information Literacy Program Excel (2013) Advanced Charts 2015 ANU Library anulib.anu.edu.au/training ilp@anu.edu.au Table of Contents Excel (2013) Advanced Charts Overview of charts... 1 Create a chart...
More informationKSTAT MINIMANUAL. Decision Sciences 434 Kellogg Graduate School of Management
KSTAT MINIMANUAL Decision Sciences 434 Kellogg Graduate School of Management Kstat is a set of macros added to Excel and it will enable you to do the statistics required for this course very easily. To
More informationSpreadsheets and Laboratory Data Analysis: Excel 2003 Version (Excel 2007 is only slightly different)
Spreadsheets and Laboratory Data Analysis: Excel 2003 Version (Excel 2007 is only slightly different) Spreadsheets are computer programs that allow the user to enter and manipulate numbers. They are capable
More informationPolynomial Neural Network Discovery Client User Guide
Polynomial Neural Network Discovery Client User Guide Version 1.3 Table of contents Table of contents...2 1. Introduction...3 1.1 Overview...3 1.2 PNN algorithm principles...3 1.3 Additional criteria...3
More informationJanuary 26, 2009 The Faculty Center for Teaching and Learning
THE BASICS OF DATA MANAGEMENT AND ANALYSIS A USER GUIDE January 26, 2009 The Faculty Center for Teaching and Learning THE BASICS OF DATA MANAGEMENT AND ANALYSIS Table of Contents Table of Contents... i
More informationStatgraphics Getting started
Statgraphics Getting started The aim of this exercise is to introduce you to some of the basic features of the Statgraphics software. Starting Statgraphics 1. Log in to your PC, using the usual procedure
More informationNCSS Statistical Software. Xbar and s Charts
Chapter 243 Introduction This procedure generates Xbar and s (standard deviation) control charts for variables. The format of the control charts is fully customizable. The data for the subgroups can be
More informationWorking with SQL Server Integration Services
SQL Server Integration Services (SSIS) is a set of tools that let you transfer data to and from SQL Server 2005. In this lab, you ll work with the SQL Server Business Intelligence Development Studio to
More informationTips and Tricks for Printing an Excel Spreadsheet
Tips and Tricks for Printing an Excel Spreadsheet Microsoft Excel provides the following ways to view your spreadsheet and adjust how it will look printed: Normal view This is the default view and is best
More informationSession 10. Laboratory Works
Session 10 Laboratory Works Addingin the data analysis tool pack to excel Statistical analysis such as descriptive statistics and regression requires the Excel Data Analysis addin. The default configuration
More informationMicrosoft Excel. Qi Wei
Microsoft Excel Qi Wei Excel (Microsoft Office Excel) is a spreadsheet application written and distributed by Microsoft for Microsoft Windows and Mac OS X. It features calculation, graphing tools, pivot
More informationExcel Guide for Finite Mathematics and Applied Calculus
Excel Guide for Finite Mathematics and Applied Calculus Revathi Narasimhan Kean University A technology guide to accompany Mathematical Applications, 6 th Edition Applied Calculus, 2 nd Edition Calculus:
More informationChapter 6: The Information Function 129. CHAPTER 7 Test Calibration
Chapter 6: The Information Function 129 CHAPTER 7 Test Calibration 130 Chapter 7: Test Calibration CHAPTER 7 Test Calibration For didactic purposes, all of the preceding chapters have assumed that the
More informationHow to Create a Data Table in Excel 2010
How to Create a Data Table in Excel 2010 Introduction Nicole Bernstein Excel 2010 is a useful tool for data analysis and calculations. Most college students are familiar with the basic functions of this
More informationQuickstart for Desktop Version
Quickstart for Desktop Version What is GeoGebra? Dynamic Mathematics Software in one easytouse package For learning and teaching at all levels of education Joins interactive 2D and 3D geometry, algebra,
More informationInstruction Manual for SPC for MS Excel V3.0
Frequency Business Process Improvement 2813049504 20314 Lakeland Falls www.spcforexcel.com Cypress, TX 77433 Instruction Manual for SPC for MS Excel V3.0 35 30 25 LSL=60 Nominal=70 Capability Analysis
More informationESTIMATING THE DISTRIBUTION OF DEMAND USING BOUNDED SALES DATA
ESTIMATING THE DISTRIBUTION OF DEMAND USING BOUNDED SALES DATA Michael R. Middleton, McLaren School of Business, University of San Francisco 0 Fulton Street, San Francisco, CA 00  middleton@usfca.edu
More informationSAS Analyst for Windows Tutorial
Updated: August 2012 Table of Contents Section 1: Introduction... 3 1.1 About this Document... 3 1.2 Introduction to Version 8 of SAS... 3 Section 2: An Overview of SAS V.8 for Windows... 3 2.1 Navigating
More informationUsing Microsoft Excel to Analyze Data
Entering and Formatting Data Using Microsoft Excel to Analyze Data Open Excel. Set up the spreadsheet page (Sheet 1) so that anyone who reads it will understand the page. For the comparison of pipets:
More informationPivot Tables & Pivot Charts
Pivot Tables & Pivot Charts Pivot tables... 2 Creating pivot table using the wizard...2 The pivot table toolbar...5 Analysing data in a pivot table...5 Pivot Charts... 6 Creating a pivot chart using the
More informationInfiniteInsight 6.5 sp4
End User Documentation Document Version: 1.0 20131119 CUSTOMER InfiniteInsight 6.5 sp4 Toolkit User Guide Table of Contents Table of Contents About this Document 3 Common Steps 4 Selecting a Data Set...
More informationInterpretation of forest plots Part I
Interpretation of forest plots Part I 1 At the end of this lecture, you should be able to understand the principles and uses of forest plot. You should also be able to modify the forest plots. 2 What is
More informationCharts and Pivot Tables. Training Manual
Charts and Pivot Tables Training Manual Excel 2007 Table of Contents Section 1: Working With Charts... 1 Lesson 1.1: Working With Charts, Part 1...2 Creating a Chart...2 Formatting a Chart...4 Modifying
More informationSELFORGANISING MAPPING NETWORKS (SOM) WITH SAS EMINER
SELFORGANISING MAPPING NETWORKS (SOM) WITH SAS EMINER C.Sarada, K.Alivelu and Lakshmi Prayaga Directorate of Oilseeds Research, Rajendranagar, Hyderabad saradac@yahoo.com Self Organising mapping networks
More informationPlots, CurveFitting, and Data Modeling in Microsoft Excel
Plots, CurveFitting, and Data Modeling in Microsoft Excel This handout offers some tips on making nice plots of data collected in your lab experiments, as well as instruction on how to use the builtin
More informationHow do I rearrange the format of the detail report so that subtests show as column headings instead of appearing in the body of the report?
CREATING PIVOT TABLE REPORTS How do I rearrange the format of the detail report so that subtests show as column headings instead of appearing in the body of the report? Show subtests as column headings
More informationMicrosoft Office Excel 2013
Microsoft Office Excel 2013 Navigating the Excel Interface The Components of the Excel 2013 Interface Component Quick Access Toolbar The ribbon Ribbon tabs Task pane Formula Bar Status bar Description
More informationNISElements: Object Count
NISElements: Object Count Automated Counting & Analysis with Object Count In the Object Count dialog, NISElements combines intensity thresholding, feature restriction and result/dataview in a simple
More informationExcel 2003 Use Excel to turn the SOLAR Class Roster Download into an Electronic Grade Book and Attendance Roster
Excel 2003 Use Excel to turn the SOLAR Class Roster Download into an Electronic Grade Book and Attendance Roster Make the Most of a Class Roster Download Getting Started with Microsoft Excel 2003 Save
More informationFactorial Analysis of Variance
Chapter 560 Factorial Analysis of Variance Introduction A common task in research is to compare the average response across levels of one or more factor variables. Examples of factor variables are income
More informationLesson 3  Processing a MultiLayer Yield History. Exercise 34
Lesson 3  Processing a MultiLayer Yield History Exercise 34 Objective: Develop yieldbased management zones. 1. FileOpen Project_33.map. 2. Double click the Average Yield surface component in the
More information1 Formulas and Functions April 09 C:\Documents and Settings\skoludek_r\Desktop\MSprogs\Excel\Formulas and Functions handout.doc
1 Formulas and Functions Contents FORMULAS AND FUNCTIONS... 3 Arithmetic formulae... 3 Error Messages... 3 Entering formulae... 4 Addition... 4 Subtraction... 4 Building formulae using mouse... 5 Multiplication...
More informationAccess 2007 Creating Forms Table of Contents
Access 2007 Creating Forms Table of Contents CREATING FORMS IN ACCESS 2007... 3 UNDERSTAND LAYOUT VIEW AND DESIGN VIEW... 3 LAYOUT VIEW... 3 DESIGN VIEW... 3 UNDERSTAND CONTROLS... 4 BOUND CONTROL... 4
More informationTutorial for Windows and Macintosh Quality Scores
Tutorial for Windows and Macintosh Quality Scores 2016 Gene Codes Corporation Gene Codes Corporation 775 Technology Drive, Ann Arbor, MI 48108 USA 1.800.497.4939 (USA) +1.734.769.7249 (elsewhere) +1.734.769.7074
More informationHOW TO USE MINITAB: INTRODUCTION AND BASICS. Noelle M. Richard 08/27/14
HOW TO USE MINITAB: INTRODUCTION AND BASICS 1 Noelle M. Richard 08/27/14 CONTENTS * Click on the links to jump to that page in the presentation. * 1. Minitab Environment 2. Uploading Data to Minitab/Saving
More informationSetting up ATI Eyefinity Technology Display Groups is easy using ATI Catalyst Control Center!
Page3: Setup Guides Using ATI Eyefinity Technology Setting up ATI Eyefinity Technology Display Groups is easy using ATI Catalyst Control Center! The following guides provide StepbyStep instructions for
More informationTutorial Segmentation and Classification
MARKETING ENGINEERING FOR EXCEL TUTORIAL VERSION 1.0.8 Tutorial Segmentation and Classification Marketing Engineering for Excel is a Microsoft Excel addin. The software runs from within Microsoft Excel
More informationWave User Guide. Contents
XF e Wave User Guide Contents Chapter 1: Designing Your Assay... 6 Overview of the Process: Design, Run, and Analyze... 6 Step 1: Design your assay... 6 Step 2: Run your assay... 6 To run a design created
More informationOverview What is a PivotTable? Benefits
Overview What is a PivotTable? Benefits Create a PivotTable Select Row & Column labels & Values Filtering & Sorting Calculations Data Details Refresh Data Design options Create a PivotChart Slicers Charts
More information2.500 Threshold. 2.000 1000e  001. Threshold. Exponential phase. Cycle Number
application note RealTime PCR: Understanding C T RealTime PCR: Understanding C T 4.500 3.500 1000e + 001 4.000 3.000 1000e + 000 3.500 2.500 Threshold 3.000 2.000 1000e  001 Rn 2500 Rn 1500 Rn 2000
More information