Test data for this app appears directly in the Discovery Environment in the Data window under Community Data -> iplantcollaborative -> example_data -> PlinkConversion.
There are three different sets of input. All of the input formats are PLINK format, and the links can be followed to read about them all in detailpossible input formats, only one may be used at a time. Make sure to follow the directions on the application when entering input data. For example, if using the regular fileset (.map/.ped) then enter the inputs into .map and .ped box respectively, leaving all other input boxes empty. If using transposed fileset (.tfam/.tped) then enter inputs in the labeled .tfam and .tped boxes, leaving the other boxes empty . In ADDITION the user must go to the parameters section and check the box saying 'Transposed files are inputs'. The same thing must be done when entering the binary fileset.
http://pngu.mgh.harvard.edu/~purcell/plink/download.shtml (for most current version, depending on OS)