Question: miRdeep2 mapper error
gravatar for nivya.james2016
23 months ago by
nivya.james20160 wrote:

Hi all,

I am trying to map my miRNA reads to the genome using the miRDeep2 mapper but is facing an error. Kindly help me. I am posting the commands used and the error below

nj@nj2:~/Desktop/Fastq files/SRR7189567-stage 1A$ trim_3_SRR7189567.fastq -e -j -k TCGTATGCCGTCTTCTGCTTGT  -l 18 -m -p /Desktop/indexed genome/genome -s readscollapsed.fa -t reads_collapsed_vs_genome.arf -v -n -h

at least one output file (-s or -t) must be designated

What is the mistake and what should be done?

Thank you mirdeep2 • 426 views
ADD COMMENTlink modified 21 months ago by Biostar ♦♦ 20 • written 23 months ago by nivya.james20160

Based on the error you need to provide on of the following.

-t species    species being analyzed - this is used to link to
              the appropriate UCSC browser
-s file       File with known miRBase star sequences
ADD REPLYlink modified 23 months ago • written 23 months ago by genomax89k
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