[BioC] shan

[wang peter]

dear ALL:
     i want to find DE genes between two conditions,
each condition has 6 samples, but among those 6 samples,
3 samples contains  51 bp reads and 3 samples contains 100 bp reads.
that is because 51 bp reads are too short, so we sequenced
100 bp on the same samples.
     i know using DESeq, i should combine 51 bp with 100 bp reads
on each sample as technical replicate. but i donot want to remove
those difference by combination of them.
    who can help me design a good experimental design?
	
thank u in advance

shan

-- 
shan gao
Room 231(Dr.Fei lab)
Boyce Thompson Institute
Cornell University
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