Noa,
> This is one thing I would like help with- is it worth simply reducing to
> nothing the max intron size? What is accepted consensus when using tophat on
> bacterial genomes?
I'm not sure that folks on this list have much experience with bacterial
transcriptome analysis. You might try seq
Hi everyone
I am running tophat and cufflinks on a bacterial genome.
As parameters for tophat, I used minimal distance between introns
as 15bp, and max intron size as 1500bp. Visual verification of
this looks decent. What I mean by this is that when I look at the
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