Transposing pitches in the lilypond file itself?

[Alasdair McAndrew]

I'm not quite sure how to search online for this, hence my asking here.  
I'm doing a little bit of arranging of some baroque pieces for specific 
instruments, which usually requires some transposition.  I can transpose 
within the lilypond file so that the output score has the correct 
(transposed) notes, but what I really want is to have the transposed notes 
in the lilypond file itself.  This means I can print out the score without 
needing to transpose anything.  So basically I want to change an input 
from, say
\transpose c,f {c d e f}

to simply

{f g a bf}

In other words, I want the transposition in the file itself, not just in 
the typeset output.  Is there a way of doing this - maybe with an external 
command (I'm using Linux)?   

Thank you very much,
Alasdair