Question: How to detect rRNA from reads ?
1
gravatar for prpadi
6.4 years ago by
prpadi10
Germany
prpadi10 wrote:

Hi all,

I have sequenced many RNA and I would like to identify all the ribosomal RNA, or a maximum of all of them. Which software could I used to detect these rRNA ?

Thank you for your help.

sequencing rna-seq next-gen • 2.5k views
ADD COMMENTlink modified 6.4 years ago • written 6.4 years ago by prpadi10

What organism are you studying?

ADD REPLYlink written 6.4 years ago by Jason900

Mainly sequences from Anopheles

ADD REPLYlink written 6.4 years ago by prpadi10
1
gravatar for cts
6.4 years ago by
cts1.6k
Pasadena
cts1.6k wrote:

I've used SortMeRNA with good effect before.

ADD COMMENTlink modified 8 months ago by RamRS30k • written 6.4 years ago by cts1.6k

SortMeRNA is useful to remove rRNAs. Do you know any option to save these rRNA reads? I want to do some further analysis to these rRNAs. Thanks.

ADD REPLYlink written 7 months ago by Shicheng Guo8.3k

You can refer to the manual which says that for paired-end reads, either paired_in or paired_out can save rRNA to an "aligned.fastq" file, depending on your purposes.

ADD REPLYlink written 10 weeks ago by qiyangqd0
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