Meanings of commands

The file in Figure 6.2 also has commands embedded into it. Rqtl recognizes any token that begins with a minus sign (-) as an embedded command. Some commands require that the following token be a number or piece of information. The following table gives a list of tokens that the program recognizes, their purpose and what the next token should be.

Command	Followed by	Means
-filetype	qtls.inp	Tells Rqtl what to expect in the format.
-Units	cM or M	cM for centiMorgans and M for Morgans.
-named	yes or no	Answers whether the traits will have names.
-start	qtls	Begin data defining QTLs
-interactions		Begin data on defining interactions
-skip		Tells Rqtl to skip everything until an
-unskip		which is the end of the -skip. These
		cannot be within a -start to -stop block
		or a -interactions to -stop block
-stop		End of a qtls or interactions block
-end		End of the file