Hello Falak, Single your data is single end, there should be no forward/reverse sequence data to split, you can just run Bowtie in a single run. Hopefully this helps, Best, Jen Galaxy team On 4/26/11 2:44 PM, Sher, Falak wrote:

Hi Experts,

I have single end Illumina reads from ChIP-Seq experiment. The files have encoding Illumina 1.5, and the sequence length is 76bp.

After basic FastQc I want to map the sequences using Bowtie. My question is:

do I need to split my reads (farward and backward) before running mapping tool?

In one of Galaxy screen shorts reads are spitted while not in the other.

Thank you in advance, F

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