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Dear all,
taken a look through the forum to find related questions. While there are plenty of tools for reference guided RNA-seq assembly (TopHat/Cufflinks, etc.) in general is there anything that can use the genome of a related species (at, say, 90% sequence similarity level) to guide the assembly process?
I could obviously tweak the alignment step and pass these on to an assembler, or go with a de novo assembler, just want to make sure I'm not overlooking an existing solution.
Cheers, Oliver
taken a look through the forum to find related questions. While there are plenty of tools for reference guided RNA-seq assembly (TopHat/Cufflinks, etc.) in general is there anything that can use the genome of a related species (at, say, 90% sequence similarity level) to guide the assembly process?
I could obviously tweak the alignment step and pass these on to an assembler, or go with a de novo assembler, just want to make sure I'm not overlooking an existing solution.
Cheers, Oliver