Question: TopHat with Culex quinquefasciatus genome
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gravatar for cheolho_sim
7 months ago by
cheolho_sim0 wrote:

I try to use TopHat for RNA-seq data. The Culex quinquefasciatus genome will be used for the TopHat. Would you me a guide which genome data that I need to use along with RNA-seq data (from Illumina HighSeq)?

Here is the Culex quinquefasciatus genome data webpage. https://www.vectorbase.org/organisms/culex-quinquefasciatus

Assembly, Gene set, Scaffolds?

rna-seq • 188 views
ADD COMMENTlink modified 7 months ago by Jennifer Hillman Jackson22k • written 7 months ago by cheolho_sim0
0
gravatar for Jennifer Hillman Jackson
7 months ago by
United States
Jennifer Hillman Jackson22k wrote:

Hello,

Use the Scaffolds data as the target reference genome.

Load the fasta file into Galaxy and use it as a Custom reference genome with Tophat and other tools. https://wiki.galaxyproject.org/Support#Custom_reference_genome

Thanks, Jen, Galaxy team

ADD COMMENTlink written 7 months ago by Jennifer Hillman Jackson22k
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