Hello,
First time posting here I am attempting to assemble a de novo mammalian transcriptome from Illumina GAII 76bp paired end library. I am looking for suggestions for the best tool to make an consensus (non-redundant) transcriptome from the assembled contigs. That is, I have already assembled the reads into contigs (using Trinity) and now looking for the best tool to take me through the next step, making a consensus transcriptome that is non-redundant that can be used for down stream analyses (multiple sequence aligners, i.e. MUSCLE). I have read up on CAP3, but does anyone have an comments on this, will it produce a non-redundant output?
Thanks in advance.
First time posting here I am attempting to assemble a de novo mammalian transcriptome from Illumina GAII 76bp paired end library. I am looking for suggestions for the best tool to make an consensus (non-redundant) transcriptome from the assembled contigs. That is, I have already assembled the reads into contigs (using Trinity) and now looking for the best tool to take me through the next step, making a consensus transcriptome that is non-redundant that can be used for down stream analyses (multiple sequence aligners, i.e. MUSCLE). I have read up on CAP3, but does anyone have an comments on this, will it produce a non-redundant output?
Thanks in advance.
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