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These were all MP trees, but feel free to use ML or Bayesian trees, or sub-optimal parsimony trees, or any other trees you feel you'd like to use with the Ancestral Parsimony algorithm. You can also import alignments in Phylip formats and other data in CSV format, or space- or tab-delimited tables. Sequences may appear more than once. Introduction 3 2. Begin GeoTags; Dimensions NClusts=5; Format labels=yes separator=spaces; ClustLatitude ; ClustLongitude ; ClustLabels Europe Asia Africa Australia America; Matrix seq_ seq_ seq_ seq_ seq_ seq_ seq_ seq_ seq_ seq_ seq_ seq_ seq_ seq_ ; End; This is a Trees block (this was saved by PAUP*, but any Nexusformat Trees block will do). Don't worry if you made a mistake (or if PopART made a mistake) identifying your locations, you can right-click on the pie charts and tell PopART to move them. The software may be used or copied only in accordance with the terms of the agreement. When you receive, Platform: Windows PC Ref no: USER 166 Date: 14 th January 2008 Version: 1 Authors: Derek Sheward, Claire Napier Creating forms in Microsoft Access 2007 This is the fourth document in a series of five on, Ribbon menu The Ribbon menu system with tabs for various Excel commands. Grid 6 Rows and groups 6 Columns 7 Time blocks 10 Icons 10 Comments 11 Dependencies, SECTION 5: Finalizing Your Workbook In this section you will learn how to: Protect a workbook Protect a sheet Protect Excel files Unlock cells Use the document inspector Use the compatibility checker Mark, 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, Chapter 1 The Reporting Console This chapter provides a tour of the WebTrends Reporting Console and describes how you can use it to view WebTrends reports. This Ribbon system replaces the traditional menus used with Excel 2003. User can provide coordinates for localities such that a color-coded map is h{GbvX{JWEjHz"L$]A]3@D "TJfDy&W?k;Qo/b7.UN? You can move nodes around, or move labels independently. seq_ N E 10 seq_ N E 5 seq_ N E 6 seq_ N E 5 seq_ N E 4 seq_ N E 10 seq_ N E 4 seq_ N E 2 seq_ N E 3 seq_ N E 5 seq_ N E 3 seq_ N E 3 seq_ N E 7 seq_ N E 3, 17 Traits Tables A traits table should include a column with sequence names, and columns for each trait. If your computer does not have that tool, Analysis of DNA sequence data p. 1 Analysis of DNA sequence data using MEGA and DNAsp. You can change the colours using several pre-defined themes, zoom in and out of networks, and rotate networks, and you can show or hide viewers that let you see the names of identical sequences at network nodes, or view trait distributions as bar charts, rather than pie charts. Create a new analysis 2 4. Columns. The networks produced, however, are often cumbersome to interpret. At the moment you can't use PopART to edit either the alignment or the traits data, but this feature will be added at some point. Save log file (Statistics --> Identical sequences --> Yes). Geotags Tables Geotag tables are fairly strict. You'll find that these networks tend to have a lot of edges, because there's often a lot of uncertainty in the inference of ancestral sequences. However, if your input Nexus file contains blocks that PopART doesn't use, you should save to a new file, because these won't be saved. It also provides information about how to customize, Creating and Managing Online Surveys LEVEL 2 Accessing your online survey account 1. ECDL. What you'll learn. IPDPS 2:184. This will be reflected in the traits viewer, as well as in the map or network view. 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. However, Chapter 2: Clients, charts of accounts, and bank accounts Most operations in BankLink Practice are client specific. These will be. If the number of samples is left out, PopART will assume that a single sequence was found at the given latitude and longitude. Place PopART_Xtreme.py, and the .txt, .svg, and .log files into the same directory. For any questions, Heuristics for the Sorting by Length-Weighted Inversions Problem on Signed Permutations AlCoB 2014 First International Conference on Algorithms for Computational Biology Thiago da Silva Arruda Institute, Creating an Excel XY (Scatter) Plot EXCEL REVIEW 21-22 1 What is an XY or Scatter Plot? Gephi version 0.7alpha2 was used to do this tutorial. Introduction 1. Common Terminology C. Introduction to Chart Types D. Creating a Chart in FileMaker E. About Quick Charts 1. New edges won't be added if they create any distances on the network that are shorter than the distances between sequences. Mol Biol Evol, 16(1): Clement M, Snell Q, Walker P, Posada D, Crandall K (2002). See the example for the syntax for Traits and GeoTags blocks. The standard "open", "close", and "save as" items do what you would expect them to. Add pictures to your poster 17. To run the Explore procedure, APPENDICES Appendix 1 Autodesk MapGuide Viewer R6 Help http://www.mapguide.com/help/ver6/viewer/en/index.htm Appendix 2 The MapPlace Toolbar and Popup Menu http://www.em.gov.bc.ca/mining/geolsurv/mapplace/menudesc.htm, Gephi Tutorial Welcome to this introduction tutorial. While useful in themselves for determining conserved residues, JustClust User Manual Contents 1. Syllabus Version 5.0, Lab 2/Phylogenetics/September 16, 2002 1 PHYLOGENETICS, Parametric Technology Corporation. Charting, OrgPlus Guide 1) Logging In 2) Icon Key 3) Views a. Org Chart b. your web browser of choice. TCS: Estimating gene genealogies. Bandelt H, Forster, P, Rhl A (1999). Users, Create Charts in Excel Table of Contents OVERVIEW OF CHARTING 1 AVAILABLE CHART TYPES 2 PIE CHARTS 2 BAR CHARTS 3 CREATING CHARTS IN EXCEL 3 CREATE A CHART 3 HOW TO CHANGE THE LOCATION, Create Mailing Labels from an Electronic File Microsoft Word 2002 (XP) Electronic data requests for mailing labels will be filled by providing the requester with a commadelimited text file. How can I Email A Map? BEGIN TRAITS; Dimensions NTRAITS=5; Format labels=yes missing=? 1. You'll be asked to confirm the results. Opening a Data Set - 2 IV. Word basics. 1 Import data from, Tutorial 3 Maintaining and Querying a Database Microsoft Access 2013 Objectives Session 3.1 Find, modify, and delete records in a table Hide and unhide fields in a datasheet Work in the Query window in. Clustering is done using the k-means algorithm. Analysis of two genes from the X and Y chromosomes of plant species from the genus Silene The first two computer classes. The bottom mark is for all following lines in that paragraph. Finally, you can choose whether you want to display a legend on the map or in a separate window. 10 Nexus Format This is an example of a Nexus file, modified from a sample file distributed with DNASP. The image window 3 5. Our efforts to improve the utility of haplotype networks to researchers have resulted in Press enter and wait for two html files to appear in the working directory: 1) the European Computer Driving Licence. PopART can also import alignments in Phylip formats and traits or geotags in tabular formats (tab, space, or comma-delimited). If you do not include these keywords, PopART will try to search for your TraitLabels as though they name geographical locations when you switch to the map view. If you are not logged, INFOASSIST: REPORTING MADE SIMPLE BRIAN CARTER INFORMATION BUILDERS SUMMIT 2010 USERS CONFERENCE JUNE 2010 Presentation Abstract: InfoAssist, WebFOCUS' browser-based ad hoc reporting tool, provides a single. Note that cell A1 is left blank. the following three specific contributions via PopART_Xtreme.py: This commit does not belong to any branch on this repository, and may belong to a fork outside of the repository. You can optionally include a header row, but it will be ignored, so make sure you give latitude and longitude in the correct order. I ve put together, Data Tool Platform SQL Development Tools ekapner Contents Setting SQL Development Preferences5 Execution Plan View Options Preferences5 General Preferences5 Label Decorations Preferences6, Access Tutorial 3 Maintaining and Querying a Database Microsoft Office 2013 Enhanced Objectives Session 3.1 Find, modify, and delete records in a table Hide and unhide fields in a datasheet Work in the, WORDPAD TUTORIAL WINDOWS 7 Quick Access bar Home Tab Triangles = More Commands Groups on the Home tab Right paragraph margin Left paragraph Margin & Indent Paragraphs Ruler Hover the mouse pointer over, MicroStrategy Desktop Quick Start Guide MicroStrategy Desktop is designed to enable business professionals like you to explore data, simply and without needing direct support from IT. If you have both geotag and other trait information loaded, you can toggle between the two to colour your network, or to place your sequences on the map. If you have traits associated with both geotag and regular traits data, you can toggle between the two using the "view" menu. The following will give a description of each of them. 16 Importing Tables You can import two kinds of data that will be used to colour the nodes in your haplotype networks. character means that a sequence contains the same state as the first sequence at the position in question). Median-joining networks for inferring intraspecific phylogenies. Modules a. T-test, Excel -- Creating Charts The saying goes, A picture is worth a thousand words, and so true. The following will give a description of each of them. Using, 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. Column 1 Column 2 Column 3 Row 1 Cell 1 Cell 2 Cell 3 Row 2 Cell 4 Cell 5 Cell 6 Row 3 Cell 7 Cell 8 Cell 9. Running JustClust 3. Microsoft Office Excel 2007 Key Features Office of Enterprise Development and Support Applications Support Group 2011 TABLE OF CONTENTS Office of Enterprise Development & Support Acknowledgment. >Data file = /home/jleigh/workspace/hapnet/examples/dnasp.nex >Heuristic search settings: 13 > Optimality criterion = parsimony > Character-status summary: > Of 56 total characters: > All characters are of type 'unord' > All characters have equal weight > 45 characters are constant > 8 variable characters are parsimony-uninformative > Number of parsimony-informative characters = 3 > Gaps are treated as "missing" > Starting tree(s) obtained via stepwise addition > Addition sequence: simple (reference taxon = seq 1) > Number of trees held at each step during stepwise addition = 1 > Branch-swapping algorithm: tree-bisection-reconnection (TBR) > Steepest descent option not in effect > Initial 'MaxTrees' setting = 100 (will be auto-increased by 100) > Branches collapsed (creating polytomies) if maximum branch length is zero > 'MulTrees' option in effect > Topological constraints not enforced > Trees are unrooted > >Heuristic search completed > Total number of rearrangements tried = 976 > Score of best tree(s) found = 16 > Number of trees retained = 14 > Time used = <1 sec (CPU time = 0.00 sec) ] Translate 1 seq_1, 2 seq_2, 3 seq_3, 4 seq_4, 5 seq_5, 6 seq_6, 7 seq_7 ; tree PAUP_1 = [&U] (1,((2,3),((4,6,7),5))); tree PAUP_2 = [&U] (1,((2,3),(((4,7),6),5))); tree PAUP_3 = [&U] (1,((2,3),(((4,7),5),6))); tree PAUP_4 = [&U] (1,((2,3),(((4,6),7),5))); tree PAUP_5 = [&U] (1,((2,3),((4,7),(5,6)))); tree PAUP_6 = [&U] (1,((2,3),((4,(5,6)),7))); tree PAUP_7 = [&U] (1,((2,3),(4,(5,6),7))); tree PAUP_8 = [&U] (1,((2,3),((4,5),6,7))); tree PAUP_9 = [&U] (1,((2,3),(4,5,6,7))); tree PAUP_10 = [&U] (1,((2,3),((4,6),5,7))); tree PAUP_11 = [&U] (1,((2,3),(((4,6),5),7))); tree PAUP_12 = [&U] (1,((2,3),((4,5,7),6))); tree PAUP_13 = [&U] (1,((2,3),(((4,5),7),6))); tree PAUP_14 = [&U] (1,((2,3),(((4,5),6),7))); End; 14 The Networks PopART includes several network inference methods. Installation & Requirements 3 3. 3. Sample Table. Introduction3 1.1 Overview3 1.2 PNN algorithm principles3 1.3 Additional criteria3, Visualization of Phylogenetic Trees and Metadata November 27, 2015 Sample to Insight CLC bio, a QIAGEN Company Silkeborgvej 2 Prismet 8000 Aarhus C Denmark Telephone: +45 70 22 32 44 www.clcbio.com support-clcbio@qiagen.com, Spotfire v6 New Features TIBCO Spotfire Delta Training Jumpstart Map charts New map chart Layers control Navigation control Interaction mode control Scale Web map Creating a map chart Layers are added, Website Builder Overview The Website Builder tool gives users the ability to create and manage their own website, which can be used to communicate with students and parents outside of the classroom. Author affiliation: Julio Rozas 1, *, Juan C. Snchez-DelBarrio 2,3, Xavier Messeguer 2 and Ricardo Rozas 1 1 Departament de Gentica, Working with Tables in Microsoft Word The purpose of this document is to lead you through the steps of creating, editing and deleting tables and parts of tables. A worksheet is a grid, made up of columns, which are, Page 1 Data representation and analysis in Excel Let s Get Started! Copyright 1995-2010 Esri All rights reserved. No description, website, or topics provided. Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Creating Bookmarks 5) Searching a. @V/d/{jd=L03$rmp)sw$f}|;si?nhxva_@QokQ;E+X|kJXl|.e.L ocHW$_>.SG(={% ,Wn\p_}VvCScqsV%s3j`8(kWRaX8r' Pc (g^tH%q+il*OT SqVjta :u,;4M) F7yXM\)G(M88jugY^65fgow`Z%p^fyKV'2:D9 8$gYrX"Al0?/1q^f+m"e[*9"73[Es-,[y-ApiJvv@@tIfY\0Dge%a:g-no7yLwlYYM mY%3f[c"6 o@3%+W9$@:9]g~,'K%J:_g/0o_4^ :_}\~ ]o<3[|Df, | ^}+_u[o}O{`IG]G&w$FNQQW0RF#gPTi223aVd #fMW Nucleotide sequence databases. Office of Enterprise Development and Support Applications Support Group, GeneSys. Create a Poster Template 5. In: Sheppard SK & Mric G. (Eds), Campylobacter Ecology and Evolution ( ). !HG~i~^bNVg`x Read more about network inference methods View The view menu lets you switch between network and map views. 3 0 obj 5 Segretating sites: The number of sites that differ among sequences Parsimony-informative sites: The number of sites containing at least two states that occur in at least two sequences each Tajima's D: A measure of selection (see references). Filtering - 6 V. Clustering a. HCL - 8 b. K-means - 11 VI. Nexus allows sequence alignments to be stored in either these two blocks, or else in a single Data block. Scientific Graphing in Excel 2010 When you start Excel, you will see the screen below. Nexus files begin with the #NEXUS command. Add text to your poster 14. If you are logged into UNF s network, go to https://survey. SPSS INSTRUCTION CHAPTER 1 Performing the data manipulations described in Section 1.4 of the chapter require minimal computations, easily handled with a pencil, sheet of paper, and a calculator. When you switch to the map view, PopART will search for geographical coordinates for your traits, unless you have provided them already. My Business User guide Contents Page 1 Contents Welcome to your My Business user guide. This handout explores, DataPA OpenAnalytics End User Training DataPA End User Training Lesson 1 Course Overview DataPA Chapter 1 Course Overview Introduction This course covers the skills required to use DataPA OpenAnalytics. 2. Installing MeV - 2 III. You will automatically be logged in. This table gives the % of European holidays sold by a travel. in the Nexus file passed to PopART. paragraph(s). Either option can be read with PopART. Add graphs, Designing Adhoc Reports Intellicus Enterprise Reporting and BI Platform Intellicus Technologies info@intellicus.com www.intellicus.com Copyright 2013 Intellicus Technologies This document and its content, Quick Start Guide Microsoft Publisher 2013 looks different from previous versions, so we created this guide to help you minimize the learning curve.

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