Question: ChIP-Seq Read Counts
0
gravatar for teabonng
23 months ago by
teabonng30
teabonng30 wrote:

Hi Everyone,

I am very new to ChIP-Seq analysis, but i will be analyzing data from multiple studies. However, some ChIP seq studies do not have Input to compare the distribution of mapped reads, so I cannot do peak calling. In this case, is it common practice to simply get the normalized counts (like number of reads relative to library size) for each locus/gene and then compare these values?

Thank you very much.

teabonng

chip-seq • 769 views
ADD COMMENTlink written 23 months ago by teabonng30
1
gravatar for ATpoint
23 months ago by
ATpoint36k
Germany
ATpoint36k wrote:

You can call peaks withput input control. MACS has that option, trying to assess the background by a local lambda, check the priginal paper for details.

ADD COMMENTlink written 23 months ago by ATpoint36k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 828 users visited in the last hour