Question: Trying to find antisense transcripts. Can Cufflinks in Galaxy specify library type?
gravatar for jaeil.han
3.0 years ago by
United States
jaeil.han10 wrote:


I am trying to find antisense transcripts, and mapping stranded reads to reference genome using Tophat (library type specified to fr). I wonder if I have to specify the library type in Cufflinks as well because I can't find the library type option in Cufflinks of Galaxy. I am afraid if I have to use command line to run Cufflinks with that option.



cufflinks • 760 views
ADD COMMENTlink modified 3.0 years ago by Jennifer Hillman Jackson25k • written 3.0 years ago by jaeil.han10
gravatar for Jennifer Hillman Jackson
3.0 years ago by
United States
Jennifer Hillman Jackson25k wrote:


Library type can be specified on the Galaxy Cufflinks form. Change Set advanced Cufflinks options to Yes, then the option Library prep used for input reads will be available.

Hopefully this helps! Jen, Galaxy team

ADD COMMENTlink written 3.0 years ago by Jennifer Hillman Jackson25k
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