Question: Salmon unique reads
0
gravatar for tkirkland
6 months ago by
tkirkland0
tkirkland0 wrote:

I have found Salmon a very good tool to run a set of RNA-seq reads against a fasta file and get meaningful results. However, I would like to get unique hits. Is the default output unique or not? If not, is there a way to change the settings to get unuiqe reads?

count rna-seq salmon unique read • 312 views
ADD COMMENTlink modified 6 months ago by Jennifer Hillman Jackson25k • written 6 months ago by tkirkland0
0
gravatar for Jennifer Hillman Jackson
6 months ago by
United States
Jennifer Hillman Jackson25k wrote:

Hello,

Salmon counts each read once (uniquely) per transcript summary. However, the same read may contribute to the count for more than one transcript summary.

Details here: http://salmon.readthedocs.io/en/latest/file_formats.html

Thanks! Jen, Galaxy team

ADD COMMENTlink written 6 months ago by Jennifer Hillman Jackson25k
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