Reads Assembly For Short Region Sequencing

Question

[J.F.Jiang]

Hi all,

for pair-end sequencing in short region sequencing, we always get the similar reads, one for forward, the other for the reverse chain.

My question is how to merge the two reads based on each nucleotide's quality?

Thanks.

Answer 1

[Ido Tamir]

• http://www.drive5.com/usearch/manual/merge_pair.html

• http://sco.h-its.org/exelixis/web/software/pear/

and many other

[J.F.Jiang]

thanks, I have also gone through these two tools, helpful, decide to choose pear cause higher efficiency using multiple threads