Question: FastQC: 'Per base sequence content' for RNA-Seq
0
gravatar for umn_bist
3.7 years ago by
umn_bist330
umn_bist330 wrote:

Going through my RNA-seq samples, I've noticed this weird pattern for 'per base sequence content' graph.

http://imgur.com/bhYIVJT

There is a lot of noise in the first few base pairs and I was curious what it is and if I should be concerned for not reducing the noise before alignment.

rna-seq • 4.4k views
ADD COMMENTlink modified 3.7 years ago by genomax74k • written 3.7 years ago by umn_bist330
6
gravatar for genomax
3.7 years ago by
genomax74k
United States
genomax74k wrote:

Here is a link (for a post by Dr. Simon Andrews, author of FastQC) to put this topic to rest. Short answer: Nothing to worry about or mitigate.

ADD COMMENTlink modified 3.7 years ago • written 3.7 years ago by genomax74k

Thank you very much!

ADD REPLYlink written 3.7 years ago by umn_bist330
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