Question: Mapping reads against a de novo assembly -- no genome available
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gravatar for Lucila
13 months ago by
Lucila20
Lucila20 wrote:

Hi all, I have assembled a de novo transcriptome with Trinity and I was wondering which is the best approach to assess the differential expression of my samples. I have 2 conditions, with 4 replicates each, it means a total of 8 libraries with paired end reads that I used to make the assembly. I do not have an available genome from my organism. Can I use STAR to map the reads against the de novo assembly? Or do you recommend another approach to obtain the reads per each transcript? Any suggestions are welcome.

Best, Lucila.

ADD COMMENTlink modified 13 months ago • written 13 months ago by Lucila20
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gravatar for Mehmet
13 months ago by
Mehmet470
Japan
Mehmet470 wrote:

Please have a look.

Question: Mapping onto the Transcriptome, RNA-seq

ADD COMMENTlink modified 13 months ago • written 13 months ago by Mehmet470
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