Question: ChIP seq Motif analysis
0
gravatar for sonam.rani
5 months ago by
sonam.rani10
sonam.rani10 wrote:

Hi,

How to do motif analysis after peak calling? I used MACS2 for peak calling, used fastq to fasta converter, the Fasta file was groomed using FASTQ groomer to proceed with motif analysis with MEME... It shows error while grooming .. How can I do motif analysis after peak calling with MACS2?

motif meme macs2 chip-seq • 394 views
ADD COMMENTlink modified 5 months ago by Jennifer Hillman Jackson25k • written 5 months ago by sonam.rani10
1
gravatar for Jennifer Hillman Jackson
5 months ago by
United States
Jennifer Hillman Jackson25k wrote:

Hello,

Fasta datasets and even most fastq datasets do not need to be run through the Fastq Groomer. It is only needed when the fastq data has quality scores from an older NGS protocol that need to be rescaled.

An overview of NGS data preparation and ChIP-seq analysis can be found in the Galaxy tutorials: https://galaxyproject.org/learn/

Help with technical data formatting and manipulations are covered in the Galaxy Support FAQs: https://galaxyproject.org/support/

Thanks! Jen, Galaxy team

ADD COMMENTlink modified 5 months ago • written 5 months ago by Jennifer Hillman Jackson25k
1

Thank you Jennifer...!!

ADD REPLYlink written 5 months ago by sonam.rani10
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