Question: How do I convert numerals to nucleotides for RNA-Seq mapping?
0
gravatar for turton
10 weeks ago by
turton0
United States
turton0 wrote:

The FASTQ reads I imported from EBI SRA (SRR064843) appear to be numeric (0-3) rather than AGCT. How do I convert by trimmed reads to nucleotide format so that I can do read mapping? Thanks!

rna-seq • 78 views
ADD COMMENTlink modified 10 weeks ago by Jennifer Hillman Jackson22k • written 10 weeks ago by turton0
1
gravatar for Jennifer Hillman Jackson
10 weeks ago by
United States
Jennifer Hillman Jackson22k wrote:

Hello,

The tool Convert SOLiD output to fastq can be used (instructions on the tool form) on data retrieved using Get Data > EBI SRA from the link under the header "FASTQ files (Galaxy)". This places the fastq.gz file directly into your history. It can be used as is or click on the pencil icon and convert the format to uncompressed fastq.

Help pages

Thanks, Jen, Galaxy team

ADD COMMENTlink written 10 weeks ago by Jennifer Hillman Jackson22k

Thank you! :-) I'll try that

ADD REPLYlink written 9 weeks ago by turton0
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