How to detect rRNA from reads ?
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7.7 years ago
prpadi ▴ 10

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.

next-gen sequencing rna-seq • 2.9k views
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What organism are you studying?

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Mainly sequences from Anopheles

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7.7 years ago
cts ★ 1.7k

I've used SortMeRNA with good effect before.

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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.

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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.

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