Dramatic decrease of mapping efficiency between Bwameth and Bismark
0
0
Entering edit mode
10 months ago
Raphael ▴ 10

Hi all,

I have mapped an rrbs sequencing with bwameth and bismark and obtained very differents results (see in the table below). I have observ with FastQC a contaminantion with illumina adapter in the samples, but after trimming the mapping efficiency decrease with bwameth. My main question is why did I observ a so important difference in mapping efficiency between bismark and bwameth, before trimming but no after trimming ? an other question: why the efficiency of bwameth mapping is so higher without trimming and decrease with trimming, it should be the opposite ?

thanks for your help

mapping efficiency

adaptor contamination

bismark rrbs sequence fastqc bwameth • 329 views
ADD COMMENT
0
Entering edit mode

What model organism are you using in your experiment? Human, model organism or non-model organism?

ADD REPLY

Login before adding your answer.

Traffic: 2139 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6