removed rRNA tRNA in arabidopsis (using bowtie2)
1
0
Entering edit mode
7.3 years ago

Hello guys

I want to remove rRNA and tRNA in my RNA sequencing data

  1. How to remove rRNA and tRNA using bowtie2?
  2. Hw to download all plant noncoding RNAs from NCBI?

Please ASAP answer my question

Thank you

software-error RNA-Seq sequencing • 4.8k views
ADD COMMENT
1
Entering edit mode
7.3 years ago

Hi, can you ASAP check on internet, there is lot of information available regarding that.

  1. Pull down rRNA and tRNA fasta files,
  2. build a bowtie index.
  3. Map your data to these indices and use
--un <path>           write unpaired reads that didn't align to <path>

Output will be a cleaned of r/tRNA sequences.

Other links :

2nd question:

HTH

ADD COMMENT

Login before adding your answer.

Traffic: 2973 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