[Bioc-sig-seq] Input from multiple Solexa runs

[ig2ar-saf2 at yahoo.co.uk]

Hello,

How do you pool together reads from multiple Solexa runs?

Specificaly:

Say that the structure of my hard drive looks like this

/experiment01/GERALD_analysis01/(here all 8 lanes)
/experiment01/GERALD_analysis02/(here all 8 lanes)
/experiment02/GERALD_analysis01/(here all 8 lanes)

Now say that my control1 lanes are in
experiment01, analysis01, lanes 1 and 2
experiment01, analysis02, lanes 3 and 4
(all four lanes are biologically identical)

Now say that my treatment1 is in
experiment02, analysis01, lane 5 and 7

Now say that I plan to read all Reads with a filter instance called myFilter.

The question:

How do I collect all that information into a single GenomeDataList object where I can call its GenomeData objects like this
myGenomeDataList$control1
myGenomeDataList$treatment1
?

Please try to answer the specific example because there is no alternative documentation.

Thank you,

Ivan