Question: Re: Quality Trimming Of Sequences Before Rna-Seq
0
Bomba Dam • 40 wrote:
Dear Noa,
I also feel the same. So I think it would be better to use these three
steps
remove sequencing artifacts
then trim the sequences by from the 5' end or if needed from the 3'end
also
(2-5 bases, depending on your sequence quality)
finally filter the sequences by quality (I used the default
parameters).
Although it removed 15% of the sequences but I feel confident with the
high
quality data.
Any better suggestion will be appreciated.
CHeers,
Bomba
--
Dr. BOMBA DAM
Alexander von Humboldt Postdoctoral Research Fellow
Max-Planck-Institut für terrestrische Mikrobiologie
Karl-von-Frisch-Straße 10
D-35043 Marburg, Germany
E mail: bomba.dam@mpi-marburg.mpg.de
PHONE: +49 176 321 321 75 (Mobile); +49 6421 178 721 (LAB); +49 6421
2828516 (ROOM)
Assistant Professor of Microbiology
Department of Botany, Institute of Science
Visva-Bharati (A Central University)
Santiniketan, West Bengal 731235, India.
E mail: bumba_micro@visva-bhatari.ac.in, bumba_micro@rediffmail.com;