I would like to use trinity to assemble the transcriptome of a non-model eukaryote.
I have:
1. 100M: single-end, strand specific, 40bp reads.
2. 15M: paired-end, strand-specific, 75bpx2 reads.
I would like to use trinity to assemble all of the reads but could not find a way to combine SE and PE libs that are strand-specific.
Is there a way to do that, or are there other suggestions (eg different assembler)?
Merging the PE reads would probably not make a big difference.
I have:
1. 100M: single-end, strand specific, 40bp reads.
2. 15M: paired-end, strand-specific, 75bpx2 reads.
I would like to use trinity to assemble all of the reads but could not find a way to combine SE and PE libs that are strand-specific.
Is there a way to do that, or are there other suggestions (eg different assembler)?
Merging the PE reads would probably not make a big difference.
Comment