GMT Tutorial Exercise 21 - Workflow 1 - Step 1
Download the "Automated Designer for Whole Genome Scan" macro for wheat or barley (as applicable) from GMT
- Log in to GENica Marker Tools at https://www.genica.net.au/gmt/.
- Select FILES, then select LIST.
- Click on [download] next to the macro you wish to download:
- Automated_Designer_for_Barley_Whole_Genome_Scan_(Build_1)_vX.X.zip
- Automated_Designer_for_Wheat_Whole_Genome_Scan_(Build_1)_vX.X.zip
- Automated_Designer_for_Wheat_Whole_Genome_Scan_(Build_2)_vX.X.zip.
- When prompted, select to Save the file.
- Save the file to a new folder, specifically created for the experiment to be carried out.
- Unzip the macro file (e.g. by right-clicking on the file icon and selecting Extract All...).
Please note:
The information regarding the number of markers available in the different "Whole Genome Scan" kits (see brown box below) needs to be updated.
Please refer to the information on this page instead: GMT_Tutorial_Exercise_19#Marker_Screening:
Jbrueggemann 00:49, 2 June 2009 (UTC)
Which Whole Genome Scan kit to choose:
- For wheat, two kits are available; "Build#1" has 462, "Build#2" has 387 markers.
The markers in the two kits are non-redundant, so by using the two kits together, 849 different markers can be screened, offering increasingly dense genome coverage.
- For barley, currently only kit "Build#1" with two marker sets, each containing ca. 192 markers, is available.
- Click here to find out how the names and map locations of markers in a Whole Genome Scan kit can be displayed with the Polymorphism Viewer macros ("workflow 2").
- Please contact Matt Hayden for further information and access to the kits.
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