The Outcross Linkage Map Analyses Add-in for JMP® Genomics supports Linkage Mapping and QTL analyses for outcrossed lines. These analyses are conducted using the Onemap R package. This Add-in includes a OneMap Import/Export Engine, as well as Linkage Groups and Recombination, Linkage Map Order, and Build QTL Genotype Probability Data Set procedures for Outcross data. The results of these processes can then be used for QTL Interval Mapping, CIM, and MIM methods.
You can download the Outcross Linkage Mapping Add-in from the JMP File Exchange (requires a free SAS Profile).
In addition to the Add-in, you must install the R software (version 3.6.3 or 4.0.0) and the OneMap package (version 2.1.3). Please refer to the installation instructions.
In some cases (for instance, when multiple versions of R are installed), you may encounter one of these errors:
ERROR: SAS could not initialize the R language interface
ERROR: An installed version of R could not be found
In this case, you should set the R_HOME environment variable within the Windows Operating System to point to the location in which R is installed.
Note: JMP Add-ins on the JMP File Exchange are not officially supported by JMP Technical Support.
[Previously JMP Note 52744]