Drawmap van ooijen 1994 was an early program capable of drawing genetic linkage maps. If you are interested to perform a qtl analysis you still need to install the mapmakerexp also. Very efficient and powerful software such as mapmakerexp, mapmanager, gmendel. What mapmaker is how to get mapmaker how to run mapmaker on a pc compatible running dos how to run mapmaker on a sun sparcstation running sunos how to run mapmaker on an apple macintosh running aux license agreement. In describing the various features of the program, this manual indicates when a feature is only found in a particular level or addon. View the live map go to my maps or click on the generated link after saving the map. Importing a mapmaker exp data file the first option for preparing the genotyping data is to simply import a file formatted for the mapmaker exp program. As that webserver has been very popular i tried to keep its successor as similar to its predecessor as possible jurg ott. Define each chromosome you wish to search for qtls. Constructing genetic linkage maps with mapmakerexp version 3. However, the development of tools for the graphical presentation of linkage maps and qtls has lagged behind. Mapping genes controlling quantitative traits using. A sample data set including an excel file, text file, and output file are also. Jan 01, 2002 a graphical presentation of this information is often needed, both for publication purposes and for easy and intuitive interpretation.
Mapmaker exp is an interactive linkage analysis package initially developed by lander et al. A handy machine simulator application that can definitely help you learn how to program and operat. Note that from this site, can be downloaded the mapmakerexp 3. Finally, i mainly focused on mapmaker exp, and i dont know about the state of mapmakerqtl. Mapmaker is easily scriptable and it runs in a dos window now possible on intel macs as well. Map maker qtl manual lawn map maker 4 is software for professionals who need to make maps. The tutorial includes instructions of how to download mapmaker software, how to format genotypic data, how to run basic mapmaker commands, and how to display mapmaker output. Constructing genetic linkage maps with mapmakerexp. This software was created in the course of academic andor research endeavors and not as a commercial package. If you have macintosh os x or higher, you should be able to use.
To solve this problem, in this paper, we propose a strategy for mapping interactive genes using bsa and mapmakerexp. Plumed users guide a portable plugin for freeenergy calculations with molecular dynamics version 1. Preparing data for mapmakerqtl requires basic knowledge of the genome gnalysis features present in mapmakerexp 3. Manual planmaker contents v inserting comments 104. The manual of instruction is freely available in public domain. Scott wolfe department of horticulture and crop science. Isolation and initial characterization of gw5, a major qtl.
Create and save a map using either a pro or premium account. Using mapmaker exp contents index using the mapmaker files create a new working subdirectory called mm in your qwork subdirectory. Example of a genotyping data file for an f2 population, formatted for the mapmakerexp program data type f2 intercross 150 200 0 0. Page 2 sample versions of courseware from cheltenham computer training normally supplied in adobe acrobat format if the version of courseware that you are viewing is marked as not for training, sample, or similar, then it cannot be used as part of a training course, and is made.
The rockefeller university laboratory of statistical genetics. A disadvantage of this was that translucent polygons generally came out opaque because pdf printer drivers did not support that element of windows graphics. Expression of brownmidrib in a spontaneous sorghum mutant is. Mapmakerqtl record added by jurg ott the original rockefeller list. Export your visible map to an image png or pdf file. The new version of map maker contains its own pdf writer allowing you simply to save to a pdf file where issues such as translucency are correctly rendered. One critical consideration favoring mapmaker is that it calculates likelihoods properly so that one can use this information for further analysis. Using mapmakerexp you will need mapmakerexp for this part. The purpose of this user guide is to guide you, step by step, through your printer and how it works. Importing a mapmakerexp data file the first option for preparing the genotyping data is to simply import a file formatted for the mapmakerexp program. One critical consideration favoring mapmaker is that it calculates likelihoods properly so that one can use this information for further anal.
Software for the graphical presentation of linkage. Mapmaker exp performs full multipoint linkage analysis simultaneous estimation of all recombination fractions from the primary data for dominant, recessive, and codominant e. Whitehead institute constructing genetic linkage maps with. A genetic linkage map of papaya based on randomly amplified. Preparing data for mapmakerqtl requires basic knowledge of the genome gnalysis features present in mapmaker exp 3. Preparing data for mapmakerqtl requires basic knowledge of the genomic analysis features present in mapmakerexp 3.
If you dont want to use mapmakerexp, then you can use the already prepared files that come with the distribution. This tutorial provides users with an introduction to mapmaker genetic mapping software. The former is a genetic linkage map created by mapmaker exp. Rice is the worlds most important staple food crop and is a primary food source for about half of the worlds population. Mapping of three qtls for seed setting and analysis on the. Scott wolfe department of horticulture and crop science the ohio state university, oardc wooster, ohio wolfe.
Mapping of three qtls for seed setting and analysis on the candidate gene for qss1 in rice oryza sativa l. For information on installing and getting started, please see the getting started guide. If you discover one, please contact me, supply a dataset and instructions on how to reproduce the problem and ill look at creating a fix. An interactive computer package for constructing primary genetic linkage. Automatically order loci on linkage groups using one of the three available. Constructing genetic linkage maps with mapmaker exp version 3. Scott wolfe department of horticulture and crop science the. A total of 596 10mer primers were screened, and 96 polymorphisms were detected. A sophisticated algorithm for detecting typing errors in data from experimental crosses see lincoln and. The c omplete manual 67 pages, or an 193 kb html file can be downloaded from. Use easymapmaker to export your visible map to a pdf file or an image not supported on mobile or tablet devices.
However, a simplified version is presented giving one by one command and output. Manual textmaker contents vii selecting table cells and cell contents 187. Mapping genes controlling quantitative traits using mapmaker. Many many bugfixes, feature, and userinterface improvements. Mapmaker exp is a linkage analysis package designed to help construct primary linkage maps of markers segregating in experimental crosses. Aflp markers in this population using mapmakerexp 3. As bsa and mapmakerexp have been broadly used in gene. In the event that the slideshare tutorial does not work, the tutorial is also attached as a pdf at. Those that are compiled for the carbon libraries and those that arent. Show how to properly format a data set for loading into mapmaker. Mapmakerqtl genetic analysis software the rockefeller list. User manual of joinmap 5 with the link below, the user manual is available as adobe pdf document.
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