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May 14, 2019 at 12:49 comment added LucasBoatwright As mentioned above, "The biological problems are hard without knowing the organism. The technical problems can't be addressed without finding them." I would second that statement and direct you to the last paragraph I just added for clarification.
May 14, 2019 at 12:46 history edited LucasBoatwright CC BY-SA 4.0
Edits in response to clarified question
May 14, 2019 at 9:45 comment added LinuxBlanket Thank you for your answer. I edited my question to clarify it a little bit: I want to use the assembly as a reference to map reads from the single transcriptomes and do (among others) DE analysis. I probably won't use the sequence information directly from the reference.
May 8, 2019 at 14:35 history answered LucasBoatwright CC BY-SA 4.0