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Forum: RNA Sequencing 10-28-2014, 04:43 AM
Replies: 6
Views: 3,338
Posted By ezattara
Thanks for your reply. You are correct that...

Thanks for your reply.

You are correct that pooling reads from both species is not a good idea. I have separate assemblies for each species, and have used RSEM/edgeR to get expression levels for...
Forum: RNA Sequencing 10-13-2014, 11:34 AM
Replies: 5
Views: 2,908
Posted By ezattara
You should check...

You should check http://trinityrnaseq.sourceforge.net/ for details.

But something like the following should get you running:

Trinity --seqType fq --JM 100G --single reads.fq --CPU 6

Check...
Forum: RNA Sequencing 10-13-2014, 11:29 AM
Replies: 6
Views: 3,338
Posted By ezattara
Comparative expression analysis across two species

Hello everyone!

I have the following situation/design that I could use some help figuring out the best way to analyze:

I have two closely related species (non-model, no reference genome) that...
Forum: Introductions 07-21-2013, 06:06 AM
Replies: 0
Views: 1,235
Posted By ezattara
Hello from Washington DC!

Hi,

My name is Ed, and I am a evolutionary developmental biologist, currently working at the Smithsonian Museum of Natural History. I am involved in a project on regeneration of ribbon worms, and...
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