When defining a Publication you can set an option not to replicate Partition Scheme and Function. You can choose it on New Publication Wizard or the Publication Properties dialog box. Or use SP to set @schema_option
variable (0x40000 ,0x80000 ,0x100000 - table, function, schema)
[sp_addarticle][1]
or[sp_changearticle][2]
for transactional replicationsp_addmergearticle
orsp_changemergearticle
for merge replication
Further reading: Replicate Partitioned Tables and Indexes