Hello,
I asked a similar question previously, but wanted to re-post to more specifically address the question of assembly (with velvet) rather than alignment.
I was writing to ask a question of those who have, seemingly successfully, assembled to fastq's with Illumina mate pair data. I have seen other threads in which people mention that reverse complementing the reads is a necessary prerequisite to ensure the reads are facing the correct direction. Is this true? If so, is there a tool that someone could recommend to easily reverse complement a fastq or sequence.txt file?
If you have any other suggestions for dealing with mate pair data and have suggestions of tools to accomplish those tasks, I'd greatly appreciate it.
Cheers,
John
I asked a similar question previously, but wanted to re-post to more specifically address the question of assembly (with velvet) rather than alignment.
I was writing to ask a question of those who have, seemingly successfully, assembled to fastq's with Illumina mate pair data. I have seen other threads in which people mention that reverse complementing the reads is a necessary prerequisite to ensure the reads are facing the correct direction. Is this true? If so, is there a tool that someone could recommend to easily reverse complement a fastq or sequence.txt file?
If you have any other suggestions for dealing with mate pair data and have suggestions of tools to accomplish those tasks, I'd greatly appreciate it.
Cheers,
John
Comment