Hi,
I am using MiSeq paired-end reads (250X) coverage ..quality trimmed ..for de novo assembly using abyss ..
In the assembly (non-scaffolded file) I am getting streches of "NNNs" which I guess could represent
Ambigous reads
I want to check if :
Error correction softwares can be used to avoid this? Saying this I have read that most of the assemblers already have this step incorporated in them..
Can anyone put more light on their experience assembing "MiSeq" data and getting the above problems?
regards,
Nandan
I am using MiSeq paired-end reads (250X) coverage ..quality trimmed ..for de novo assembly using abyss ..
In the assembly (non-scaffolded file) I am getting streches of "NNNs" which I guess could represent
Ambigous reads
I want to check if :
Error correction softwares can be used to avoid this? Saying this I have read that most of the assemblers already have this step incorporated in them..
Can anyone put more light on their experience assembing "MiSeq" data and getting the above problems?
regards,
Nandan
Comment