I've shortened my previous post in hopes of getting a response:
- I am mapping MeDIP sequence reads (Illumina GAII) with Bowtie and using MACS for peak finding.
- Question 1: Should only unique reads be mapped?
- Question 2: How does the pattern/shape of peaks compare between MeDIP-seq and ChiP-seq?
Thanks.
jjw
- I am mapping MeDIP sequence reads (Illumina GAII) with Bowtie and using MACS for peak finding.
- Question 1: Should only unique reads be mapped?
- Question 2: How does the pattern/shape of peaks compare between MeDIP-seq and ChiP-seq?
Thanks.
jjw
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