Framework Map Data Set

Use this field to specify the name and complete path to the input data set containing a framework map.

This data set can be used to create linkage groups for markers in the genotype data that incorporate prior knowledge of markers that already belong to predefined groups. This map should contain:

•	a variable with marker names that match to at least one of the columns in the Input Genotype SAS Data Set,

•	a variable containing known linkage group membership for certain markers, and (if available)

•	a variable with known orders of the framework markers within the groups.

This data set is more flexible than an Annotation SAS Data Set, where the number and order of the markers does not need to match the marker columns in the input genotype data set.

Note: If you have built a linkage map on the highest quality markers in your genotype data set, using the Linkage Map Order process, you can use that map as a framework to add more markers into the map that you have built.

For detailed information about the files and data sets used or created by JMP Life Sciences software, see Files and Data Sets.

To Specify the Framework Map Data Set:

The method used for this specification can vary depending on whether JMP is connected to SAS on your local machine or connected to SAS on a server. You should refer to the Specifying Folders, Files, and Data Sets documentation for detailed information.

To View the Contents of the Specified Data Set:

Click Open.