Question: Minimum read length in Trimmomatic
0
gravatar for matiqau
17 months ago by
matiqau0
matiqau0 wrote:

Hello everyone,

I am using Trimmomatic to trim RNA seq data.My question is why we set the minimum read length 36? if we decrease this value, how can it effect post analysis result?

Thanks
Jan

rna-seq trimmomatic • 803 views
ADD COMMENTlink modified 17 months ago by chen1.9k • written 17 months ago by matiqau0
0
gravatar for chen
17 months ago by
chen1.9k
OpenGene
chen1.9k wrote:

You can decrease it, but too short read may cause misalignment.

And it depends on your data, if you're processing micro RNA, you should decrease it to less than 20, since micro RNA is usually 20~25 bp long.

ADD COMMENTlink written 17 months ago by chen1.9k
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