The main function sequentially runs the available nanotatoR sub-functions by merging the outputs from each step. There are in total 6 main functions depending on the type of input: nanotatoR_main_Solo_SE; nanotatoR_main_Duo_SE; nanotatoR_main_Trio_SE; nanotatoR_main_Solo_SVmerge; nanotatoR_Duo_SVmerge and nanotatoR_SVmerge_Trio. The Main function takes the SMAP file, DGV file, BED file, internal database file and phenotype term list as inputs and provides a single output file in a form of an Excel spreadsheet. The output location and file name are user-specified.

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